A Statistical Approach Predicts Human MicroRNA Targets by Smalheiser and Torvik.
Additional data file 2: List of predicted target mRNAs with all hits shown.
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 A guide to reading this file  
consider the following example:


Target # 1: >gi|37546110|ref|XM_352144.1| Homo sapiens similar to RTl1 (LOC376283), mRNA
CDS: 1 4077
Hit # 1 by hsa-miR-136 in the CDS
Query:  3' 0  AGGTAGTAGTTTTGTTTACCTCA 0 5'
w/o GU        ||||||||||||||||||||||| BLAST score 230 w/o GU        
Target: 5' 50 TCCATCATCAAAACAAATGGAGT 74/4077 3'

The heading indicates a particular mRNA in the candidate mRNA target list (e.g. RTl1), 
followed by the range of the protein coding region (CDS); 
then each hit produced by each microRNA that passed criteria, e.g. hit #1 by hsa-miR-136.  
The microRNA is shown at top in reverse (3'-5') order, with numbers flanking the sequence.
The flanking number is usually 0, indicating that the region of match to the mRNA extends 
to the end of the microRNA sequence, but sometimes is 1 or 2 if the microRNA ends do not
match up to the mRNA.  
Numbers flanking the mRNA indicate the hit positions shown 
(e.g., 50-74 with total mRNA length 4077). 
For each microRNA hit, we show first the extension and BLAST score without counting G:U matches, 
and then the extension and BLAST score with G:U.     
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Target # 1: >gi|37546110|ref|XM_352144.1| Homo sapiens similar to RTl1 (LOC376283), mRNA
CDS: 1 4077
Hit # 1 by hsa-miR-136 in the CDS
Query:  3' 0  AGGTAGTAGTTTTGTTTACCTCA 0 5'
w/o GU        ||||||||||||||||||||||| BLAST score 230
Target: 5' 51 TCCATCATCAAAACAAATGGAGT 73/4077 3'
Query:  3' 0  AGGTAGTAGTTTTGTTTACCTCA 0 5'
w/GU          ||||||||||||||||||||||| BLAST score 230
Target: 5' 51 TCCATCATCAAAACAAATGGAGT 73/4077 3'

Hit # 2 by hsa-miR-133a in the CDS
Query:  3' 0    T-GTCGACCAAC-------TTC------CCCTG--GTT 0 5'
w/o GU          | ||||||||||       |||       ||||  ||| BLAST score 167.5
Target: 5' 1177 AGCAGCTGGTTGCCCAGCGAAGTCCATCCGGACATCAA 1214/4077 3'
Query:  3' 0    TGTCGACCAAC-------TTC-------CC-CTGGTT 0 5'
w/GU            *||||||||||       |||       ||  |*||| BLAST score 176
Target: 5' 1178 GCAGCTGGTTGCCCAGCGAAGTCCATCCGGACATCAA 1214/4077 3'

Hit # 3 by hsa-miR-149 in the CDS
Query:  3' 0    C--CTCAC--TT-C---------------TGTGCCTCGG-----------------TCT 0 5'
w/o GU          |  || ||  || |               ||||||||||                 ||| BLAST score 149
Target: 5' 1395 GCTGATTGGCAACGAGCCTGTCTGGCTCTACACGGAGCCCCTGGTGTGTATCCACCAGA 1453/4077 3'
Query:  3' 0    CCT-C------ACT--TC--------------------TGTGCCTCGG-----------------TCT 0 5'
w/GU            ||| |      |||  *|                    ||||||||||                 ||| BLAST score 157
Target: 5' 1386 GGACGGCTCGCTGATTGGCAACGAGCCTGTCTGGCTCTACACGGAGCCCCTGGTGTGTATCCACCAGA 1453/4077 3'

Hit # 4 by hsa-miR-127 in the CDS
Query:  3' 0    TCGGTTCGAGTCTGCCTAGGCT 0 5'
w/o GU          |||||||||||||||||||||| BLAST score 220
Target: 5' 1733 AGCCAAGCTCAGACGGATCCGA 1754/4077 3'
Query:  3' 0    TCGGTTCGAGTCTGCCTAGGCT 0 5'
w/GU            |||||||||||||||||||||| BLAST score 220
Target: 5' 1733 AGCCAAGCTCAGACGGATCCGA 1754/4077 3'

Hit # 5 by hsa-miR-149 in the CDS
Query:  3' 0    CCT---CA--CT--TC--TGTGCCTCGG-TC 1 5'
w/o GU          |||   ||  ||  ||  |||||||||| || BLAST score 165
Target: 5' 1953 GGAACTGTTTGACCAGTTACACGGAGCCGAG 1983/4077 3'
Query:  3' 0    CCT---CA--CT--TC--TGTGCCTCGGTCT 0 5'
w/GU            |||   ||  ||  ||  ||||||||||* * BLAST score 171
Target: 5' 1953 GGAACTGTTTGACCAGTTACACGGAGCCGAG 1983/4077 3'

Hit # 6 by hsa-miR-142 in the CDS
Query:  3' 0    CATCACGAAAGATGA-----------A----ATA-C 0 5'
w/o GU          |  | ||||||||||           |    ||| | BLAST score 130.5
Target: 5' 2705 GCTGCGCTTTCTACTCCCGCAACATCTCCCCTATCG 2740/4077 3'
Query:  3' 0    C--ATCA--CGAAAGATGA-----------A----ATA-C 0 5'
w/GU            |  |* |  ||||||||||           |    ||| | BLAST score 137.5
Target: 5' 2701 GCCTGCTGCGCTTTCTACTCCCGCAACATCTCCCCTATCG 2740/4077 3'

Hit # 7 by hsa-miR-205 in the CDS
Query:  3' 1    TCT---GAGGCCACCT--TACT---------TCCT 0 5'
w/o GU          |||   ||||||||||  | ||         |||| BLAST score 160.5
Target: 5' 2989 AGAAACCTCCGGTGGAGGA-GAGCCTTCCAGAGGA 3022/4077 3'
Query:  3' 0    GT-CT---GAGGCCACCT-TACTT---------CCT 0 5'
w/GU            ** ||   |||||||||| * ||*         ||| BLAST score 168.5
Target: 5' 2987 TGAGAAACCTCCGGTGGAGGAGAGCCTTCCAGAGGA 3022/4077 3'

Hit # 8 by mmu-miR-122b in the CDS
Query:  3' 0    A-GTTTGTGGTAACAGTGTGAGGT 0 5'
w/o GU          | ||||||||||   | ||  ||| BLAST score 144.5
Target: 5' 3462 TGCAAACACCAT---CCCAGCCCA 3482/4077 3'
Query:  3' 0    A-GTTTGTGGTA-----------------------AC-A--GTGTGAGGT 0 5'
w/GU            | ||||||||||                       || |  ** *| |** BLAST score 159.5
Target: 5' 3462 TGCAAACACCATCCCAGCCCAGGAGCTGGCTGAGCTGTTCCTGGGCCCTG 3511/4077 3'

Hit # 9 by hsa-miR-182 in the CDS
Query:  3' 0    ACACTCAAGA------------------------T---GGT--A---ACGG 3 5'
w/o GU          ||||||||||                        |   |||  |   |||| BLAST score 142
Target: 5' 3589 TGTGAGTTCTTCGGTGTCAGAGTCACCCCCCAGGAGGGCCACCTCCCTGCC 3639/4077 3'
Query:  3' 0    ACACTCAAGATGGTAACGGTTT 0 5'
w/GU            |||||||||| *|* ||*||*| BLAST score 189
Target: 5' 3589 TGTGAGTTCT-TCGGTGTCAGA 3609/4077 3'

Hit # 10 by hsa-miR-217 in the CDS
Query:  3' 0    TAGGTT-----A----GTCAAGGACT---AC-----GTC 2 5'
w/o GU          | |||      |    ||||||||||   ||     ||| BLAST score 154.5
Target: 5' 3942 AGCCAGGGCCCTGAGCCAGTTCCTGACCCTGATCTACAG 3980/4077 3'
Query:  3' 0    TAGGTT-----A----GTCAAGGACT---AC-----GTCAT 0 5'
w/GU            | |||*     |    ||||||||||   ||     ||| * BLAST score 168.5
Target: 5' 3942 AGCCAGGGCCCTGAGCCAGTTCCTGACCCTGATCTACAG-G 3981/4077 3'

Hit # 11 by hsa-miR-10a in the CDS
Query:  3' 0    G--T-GTTTAAG--C-----CTAGATGTCC-C 2 5'
w/o GU          |  | | | |||  |     |||||||||| | BLAST score 139.5
Target: 5' 3952 CTGAGCCAGTTCCTGACCCTGATCTACAGGCG 3983/4077 3'
Query:  3' 0    GTGT--TTAAG--C-----CTAGATGTCC---C---AT 0 5'
w/GU            ** *  |*|||  |     ||||||||||   |   |* BLAST score 170
Target: 5' 3953 TGAGCCAGTTCCTGACCCTGATCTACAGGCGGGCCCTG 3990/4077 3'

Target # 2: >gi|30151764|ref|XM_305931.1| Homo sapiens LOC352767 (LOC352767), mRNA
CDS: 1 915
Hit # 1 by hsa-miR-219 in the CDS
Query:  3' 0   TCTTAACGCAAACCTGTTAGT 0 5'
w/o GU         ||||||||||||||||||||| BLAST score 210
Target: 5' 109 AGAATTGCGTTTGGACAATCA 129/915 3'
Query:  3' 0   TCTTAACGCAAACCTGTTAGT 0 5'
w/GU           ||||||||||||||||||||| BLAST score 210
Target: 5' 109 AGAATTGCGTTTGGACAATCA 129/915 3'

Hit # 2 by hsa-miR-133a in the CDS
Query:  3' 0   TG-T-CGA---CCAA------CTTCCCCTGGT-T 0 5'
w/o GU         || | |||   || |      ||||||||||| | BLAST score 161.5
Target: 5' 583 ACCATGCTGAAGGATAAAGGAGAAGGGGACCACA 616/915 3'
Query:  3' 0   TG-T-CGA---CCAA------CTTCCCCTGGT-T 0 5'
w/GU           || | |||   || |      ||||||||||| | BLAST score 161.5
Target: 5' 583 ACCATGCTGAAGGATAAAGGAGAAGGGGACCACA 616/915 3'

Target # 3: >gi|13569847|ref|NM_030900.1| Homo sapiens cell cycle progression 2 protein (CPR2), mRNA
CDS: 127 1692
Hit # 1 by hsa-miR-197 in the CDS
Query:  3' 0   CGAC-----CCACCTCTTCC---------------------ACCACTT 0 5'
w/o GU         | ||     |||||||||||                     | | ||| BLAST score 153.5
Target: 5' 288 GATGGAGCCGGTGGAGAAGGAACGAGCATCTACTCCCTACATAGAGAA 335/4432 3'
Query:  3' 1   GAC--------CCACCTCTTCC---------------------A---------CCACTT 0 5'
w/GU           *||        |||||||||||                     |         ||||*| BLAST score 167
Target: 5' 286 TTGATGGAGCCGGTGGAGAAGGAACGAGCATCTACTCCCTACATAGAGAAGCAGGTGGA 344/4432 3'

Hit # 2 by hsa-miR-22 in the CDS
Query:  3' 0   T-GTCAAGAAGT-------TG-AC-CGTCGA 1 5'
w/o GU         | ||||||||||       || || | |||| BLAST score 160.5
Target: 5' 956 ATCAGTTCTTCAGCCTGGTACATGAGAAGCT 986/4432 3'
Query:  3' 0   T-GTCAAGAAGTT-GACC----G----TCGA 1 5'
w/GU           | ||||||||||* ||||    *    |||| BLAST score 173
Target: 5' 956 ATCAGTTCTTCAGCCTGGTACATGAGAAGCT 986/4432 3'

Hit # 3 by hsa-miR-193 in the CDS
Query:  3' 0    GA--------CCCTGAAACA----------------------T----C-CGGTCA 1 5'
w/o GU          ||        ||||||||||                      |    | |||||| BLAST score 150.5
Target: 5' 1399 CTGCCCGTAAGGGACTTTGTGGCACCTCACCTTGCCCAGCCAACTGGGAGCCAGT 1453/4432 3'
Query:  3' 0    GA--------CCCTGAAACA--------------------------TC-CGGTCA 1 5'
w/GU            ||        ||||||||||                          *| |||||| BLAST score 158.5
Target: 5' 1399 CTGCCCGTAAGGGACTTTGTGGCACCTCACCTTGCCCAGCCAACTGGGAGCCAGT 1453/4432 3'

Hit # 4 by mmu-miR-151 in the CDS/3'UTR
Query:  3' 0    TGGAGTTCCT-------------------CG-------GA---G-TCA--GATC 0 5'
w/o GU          ||||||||||                   ||       ||   | |||  || | BLAST score 151.5
Target: 5' 1643 ACCTCAAGGACAAGATGCGCAAAGCGGTGGCTGAGGAGCTGGCCAAGTGACTTG 1696/4432 3'
Query:  3' 0    TGGAGTTCCT--------CG--GAGTCA--GA-TC 0 5'
w/GU            ||||||||||        ||    |*||  || || BLAST score 156.5
Target: 5' 1643 ACCTCAAGGACAAGATGCGCAAAGCGGTGGCTGAG 1677/4432 3'

Hit # 5 by mmu-miR-106b in the 3'UTR
Query:  3' 0    T---AGACGTGACAGTCGTGAA-A 0 5'
w/o GU          |   |||||||||||||||||| | BLAST score 182
Target: 5' 1902 ACCCTCTGCACTGTCAGCACTTGT 1925/4432 3'
Query:  3' 0    T---AGACGTGACAGTCGTGAA-A 0 5'
w/GU            |   |||||||||||||||||| | BLAST score 182
Target: 5' 1902 ACCCTCTGCACTGTCAGCACTTGT 1925/4432 3'

Hit # 6 by hsa-miR-214 in the 3'UTR
Query:  3' 0    GACGGACAGACACGGACGACA 0 5'
w/o GU          |||||||||| | || ||| | BLAST score 154
Target: 5' 2031 CTGCCTGTCTCTCCCAGCT-T 2050/4432 3'
Query:  3' 0    GACGGACAGACA----CGGACGA----------CA 0 5'
w/GU            |||||||||| |    ||*| *|          || BLAST score 162
Target: 5' 2031 CTGCCTGTCTCTCCCAGCTTCTTCCCTCCATGAGT 2065/4432 3'

Hit # 7 by hsa-miR-124a in the 3'UTR
Query:  3' 0    ACCGTAAGTG-G---CGCACGGAAT--T 0 5'
w/o GU          |||||||||| |   |  ||  |||  | BLAST score 139
Target: 5' 3274 TGGCATTCACACATTGATTG--TTAGCA 3299/4432 3'
Query:  3' 0    ACCGTAAGTG------------------------------GC-------GCAC-GGAAT 1 5'
w/GU            ||||||||||                              *|       *||| *|||* BLAST score 167
Target: 5' 3274 TGGCATTCACACATTGATTGTTAGCATATAGAAATGGGATTGATTTTTATGTGATCTTG 3332/4432 3'

Hit # 8 by hsa-miR-153 in the 3'UTR
Query:  3' 0    AGT----G------------------AAAACACTGA----------T--A-CGT-T 0 5'
w/o GU          |||    |                  ||||||||||          |  | ||| | BLAST score 134
Target: 5' 3873 TCATATACTGATGTGATATTTTGGTGTTTTGTGACTGGCTTCATTTACTTAGCATA 3928/4432 3'
Query:  3' 0    AGT-G-AAAACACTGA------TACGT---T 0 5'
w/GU            |** * ||||||||||      || *|   | BLAST score 150
Target: 5' 3893 TTGGTGTTTTGTGACTGGCTTCATTTACTTA 3923/4432 3'

Hit # 9 by hsa-miR-152 in the 3'UTR
Query:  3' 1    GTTCAAGACAGTACGTGACT 0 5'
w/o GU          ||  |||||||||| | | | BLAST score 131.5
Target: 5' 4319 CACCTTCTGTCATG-AGTAA 4337/4432 3'
Query:  3' 0    GGTTCAAGACAGTAC----------GTGA--CT 0 5'
w/GU            *||  ||||||||||          * ||  |* BLAST score 150.5
Target: 5' 4318 TCACCTTCTGTCATGAGTAAAAGCTTCCTAAGG 4350/4432 3'

Target # 4: >gi|29729032|ref|XM_059617.4| Homo sapiens similar to hypothetical protein FLJ39249 (LOC132946), mRNA
CDS: 449 820
Hit # 1 by hsa-miR-188 in the CDS
Query:  3' 0   TGGGAGGTGGTACGTTC--C-----CT--AC 0 5'
w/o GU         |||||||||||||||||  |     ||  || BLAST score 191.5
Target: 5' 760 ACCCTCCACCATGCAAGATGCCAAAGACTTG 790/926 3'
Query:  3' 0   TGGGAGGTGGTACGTTC--C-----CT--AC 0 5'
w/GU           |||||||||||||||||  |     ||  || BLAST score 191.5
Target: 5' 760 ACCCTCCACCATGCAAGATGCCAAAGACTTG 790/926 3'

Target # 5: >gi|21389524|ref|NM_144649.1| Homo sapiens hypothetical protein FLJ33069 (FLJ33069), mRNA
CDS: 144 974
Hit # 1 by hsa-miR-149 in the CDS
Query:  3' 0   CC-------------------TCACTTCTGT-G----------CCTCGGT-CT 0 5'
w/o GU         ||                   |||||||||| |          ||| ||| || BLAST score 154
Target: 5' 492 GGTGACATCAACTCTTCTCCAAGTGAAGACAACTGGTTGAAGGGGA-CCAGGA 543/1993 3'
Query:  3' 0   CC-------------------TCACTTCTGT------G---CCTC-GGTCT 0 5'
w/GU           ||                   ||||||||||      *   ||*| ||||* BLAST score 173.5
Target: 5' 492 GGTGACATCAACTCTTCTCCAAGTGAAGACAACTGGTTGAAGGGGACCAGG 542/1993 3'

Hit # 2 by hsa-miR-133a in the CDS
Query:  3' 0   TGTCGACCAACTTCCCCTGGT--T 0 5'
w/o GU         ||| |||||||||||||||||  | BLAST score 198.5
Target: 5' 520 ACAACTGGTTGAAGGGGACCAGGA 543/1993 3'
Query:  3' 0   TGTCGACCAACTTCCCCTGGTT 0 5'
w/GU           ||| |||||||||||||||||* BLAST score 207.5
Target: 5' 520 ACAACTGGTTGAAGGGGACCAG 541/1993 3'

Hit # 3 by hsa-miR-128a in the 3'UTR
Query:  3' 0    TTTTCTCTGGC------------CA-AGTGACACT 0 5'
w/o GU          |||||||||||            ||  | || ||| BLAST score 160
Target: 5' 1238 AAAAGAGACCGCCTGGAATAAATGTCCCCCTATGA 1272/1993 3'
Query:  3' 0    TTTTCTCTGGC----------------------C----AAG---TGACACT 0 5'
w/GU            |||||||||||                      |    ||*   *| |||* BLAST score 169
Target: 5' 1238 AAAAGAGACCGCCTGGAATAAATGTCCCCCTATGATTCTTTAAGGCAGTGG 1288/1993 3'

Hit # 4 by mmu-miR-147 in the 3'UTR
Query:  3' 0    CC-G-----TCTTCGTAAA-----------------------GGT----G-TGTG 0 5'
w/o GU          || |     ||||||||||                       |||    | | || BLAST score 140.5
Target: 5' 1551 GGACAGGAAAGAAGCATTTTCTGAAAGTTATATTCTTTTGAACCACGTTCTAAAC 1605/1993 3'
Query:  3' 0    CCG---------------------TCTTCGTAAA--------GGTGTGTG 0 5'
w/GU            ||*                     ||||||||||        **|*|* | BLAST score 167
Target: 5' 1536 GGTTAATATGAAAATGGACAGGAAAGAAGCATTTTCTGAAAGTTATATTC 1585/1993 3'

Target # 6: >gi|30158839|ref|XM_303960.1| Homo sapiens LOC350293 (LOC350293), mRNA
CDS: 65 1066
Hit # 1 by mmu-miR-146 in the CDS
Query:  3' 0   TTTG----------GGTACCTTAAGTCAAGA-------GT 0 5'
w/o GU         || |          |||||||||||||||||       || BLAST score 193
Target: 5' 314 AATCCTGAGAAGTACCATGGAATTCAGTTCTTGGTACCCA 353/1066 3'
Query:  3' 0   TTTG-GGTACCTTAAGTCAAGAGT 0 5'
w/GU           ||** |||||||||||||||||** BLAST score 221.5
Target: 5' 323 AAGTACCATGGAATTCAGTTCTTG 346/1066 3'

Target # 7: >gi|14763136|ref|XM_042978.1| Homo sapiens KIAA1817 protein (KIAA1817), mRNA
CDS: 369 2969
Hit # 1 by hsa-miR-217 in the 5'UTR
Query:  3' 0   TAGGTT-A----------GTCAAGGACT------------A-C---GTCAT 0 5'
w/o GU         |||  | |          ||||||||||            | |   || || BLAST score 149
Target: 5' 304 ATCTGAGTCTGCTGTCCCCAGTTCCTGAGGACAAAGGGCCTGGCCACACTA 354/4845 3'
Query:  3' 0   TAGGT--TA---GTCAAGGACTAC-G----TC--AT 0 5'
w/GU           *||**  *|   |||||||||| | |    *|  |* BLAST score 181.5
Target: 5' 310 GTCTGCTGTCCCCAGTTCCTGAGGACAAAGGGCCTG 345/4845 3'

Hit # 2 by mmu-miR-146 in the CDS
Query:  3' 0   TTTGG-GTACCTTAAG--------------------TCAAGAG 1 5'
w/o GU         | ||| ||||||||||                    || |||| BLAST score 168.5
Target: 5' 685 AGACCTCATGGAATTCTCAACATCAGCTGGGTGCAGAGGTCTC 727/4845 3'
Query:  3' 0   TTTGG-GTACCTTAAG-------------TCA-------AGAG 1 5'
w/GU           |*||| ||||||||||             *||       |||| BLAST score 185.5
Target: 5' 685 AGACCTCATGGAATTCTCAACATCAGCTGGGTGCAGAGGTCTC 727/4845 3'

Hit # 3 by hsa-miR-21 in the CDS
Query:  3' 0   AGTTGTAGTC-------------AGACTA--------T-TCGAT 0 5'
w/o GU         ||||||||||             |||  |        | ||| | BLAST score 141.5
Target: 5' 701 TCAACATCAGCTGGGTGCAGAGGTCTCTTCCAGCCCCAGAGC-A 743/4845 3'
Query:  3' 0   AGTTGTAGTCAGACTA----TTC-GA 1 5'
w/GU           |||||||||| * |*|    |*| || BLAST score 166.5
Target: 5' 701 TCAACATCAGCTGGGTGCAGAGGTCT 726/4845 3'

Hit # 4 by hsa-miR-222 in the 3'UTR
Query:  3' 0    CTCTGGGTCA------------------------------TC-GGTCTA--CATCGA 0 5'
w/o GU          ||||||||||                              || |||| |  |  ||| BLAST score 162
Target: 5' 3733 GAGACCCAGTGCAGGCCTAGGAGCCCGCCTAGCCCGGCCCAGCCCAGCTCAGGGGCT 3789/4845 3'
Query:  3' 0    CTCTGGGTCA---TC-GGTCTAC------ATCG 1 5'
w/GU            ||||||||||   *| |*||* |      |||| BLAST score 188.5
Target: 5' 3733 GAGACCCAGTGCAGGCCTAGGAGCCCGCCTAGC 3765/4845 3'

Hit # 5 by mmu-miR-200a in the 3'UTR
Query:  3' 0    TGTAGCA---ATGGTCTGTC----------------AC--AAT 0 5'
w/o GU          ||||| |   ||||||||||                ||  ||| BLAST score 167
Target: 5' 3819 ACATC-TCTCTACCAGACAGACTGTCCTTGGGAGTTTGACTTA 3860/4845 3'
Query:  3' 0    TGTAGCA---ATGGTCTGTC--AC---AAT 0 5'
w/GU            ||||| |   ||||||||||  ||   ||* BLAST score 173.5
Target: 5' 3819 ACATC-TCTCTACCAGACAGACTGTCCTTG 3847/4845 3'

Hit # 6 by hsa-miR-149 in the 3'UTR
Query:  3' 0    CCTCACTTCTGTGCCTC---------------GGT-------CT 0 5'
w/o GU          |||||||||||||||||               |||       || BLAST score 193
Target: 5' 4208 GGAGTGAAGACACGGAGTCCCTACCAACTGTCCCACTGTAGGGA 4251/4845 3'
Query:  3' 0    CCTCACTTCTGTGCCTC-------------------G-GTCT 0 5'
w/GU            |||||||||||||||||                   * *||* BLAST score 194
Target: 5' 4208 GGAGTGAAGACACGGAGTCCCTACCAACTGTCCCACTGTAGG 4249/4845 3'

Target # 8: >gi|15451863|ref|NM_033252.1| Homo sapiens UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 1 (B3GNT1), transcript variant 2, mRNA
CDS: 229 1422
Hit # 1 by mmu-miR-126* in the CDS
Query:  3' 1   CG-CAT-GGTT-------------------TTCATTATTA 1 5'
w/o GU         || ||| ||||                   |||||||||| BLAST score 155.5
Target: 5' 317 GCAGTAGCCAAGAAAAAAATGGAAAAGGGGAAGTAATAAT 356/2714 3'
Query:  3' 1   CG-CAT-GGTT-------------------TTCATTATTA 1 5'
w/GU           || ||| ||||                   |||||||||| BLAST score 155.5
Target: 5' 317 GCAGTAGCCAAGAAAAAAATGGAAAAGGGGAAGTAATAAT 356/2714 3'

Hit # 2 by hsa-miR-22 in the CDS
Query:  3' 0   TGTC-------AAGAAGTTGA----------CCGT--CGA-A 0 5'
w/o GU         ||||       ||||||||||          || |  ||| | BLAST score 165.5
Target: 5' 866 ACAGAGACACTTTCTTCAACTTGTCTCTGAAGGAAGTGCTGT 907/2714 3'
Query:  3' 0   TGTC-------AAGAAGTTGA-----------C--CGT--CGAA 0 5'
w/GU           ||||       ||||||||||           |  |**  |*|| BLAST score 177
Target: 5' 866 ACAGAGACACTTTCTTCAACTTGTCTCTGAAGGAAGTGCTGTTT 909/2714 3'

Hit # 3 by mmu-miR-26b in the CDS
Query:  3' 0   T-TGG--A---TAGGACTTAATGAACTT 0 5'
w/o GU         | |||  |   ||||||||||||||||| BLAST score 193
Target: 5' 980 ACACCCATCACATCCTGAATTACTTGAA 1007/2714 3'
Query:  3' 0   T-TGGA-----------------TAGGACTTAATGAACTT 0 5'
w/GU           | ***|                 ||||||||||||||||| BLAST score 195
Target: 5' 968 ATGTTTTTGTGAACACCCATCACATCCTGAATTACTTGAA 1007/2714 3'

Hit # 4 by mmu-miR-146 in the 3'UTR
Query:  3' 0    TTTGG-------GT-----------ACCTTAAGTCAA-GAGT 0 5'
w/o GU          ||||        ||           ||||||||||||  ||| BLAST score 171.5
Target: 5' 1865 AAACTGAAATTTCAGTTGTCAGTTGTGGAATTCAGTTTTTCA 1906/2714 3'
Query:  3' 0    TT--TG---GGTACCTTAAGTCAA-GAGT 0 5'
w/GU            |*  **   ***|||||||||||| *||| BLAST score 203
Target: 5' 1878 AGTTGTCAGTTGTGGAATTCAGTTTTTCA 1906/2714 3'

Target # 9: >gi|37540700|ref|XM_350859.1| Homo sapiens hypothetical protein FLJ32810 (FLJ32810), mRNA
CDS: 156 1496
Hit # 1 by mmu-miR-151 in the CDS
Query:  3' 0   TGGAGTTCC-------------TCGGAGTCAGATC 0 5'
w/o GU         ||| ||||              ||||||||||| | BLAST score 162
Target: 5' 601 ACC-CAAGCATTCCTCTTCCTCAGCCTCAGTCTCG 634/2675 3'
Query:  3' 0   TGGAGTTCC-------------TCGGAGTCAGA------TC 0 5'
w/GU           ||| ||||              |||||||||||      *| BLAST score 163.5
Target: 5' 601 ACC-CAAGCATTCCTCTTCCTCAGCCTCAGTCTCGATCTGG 640/2675 3'

Hit # 2 by hsa-miR-10a in the CDS
Query:  3' 0   GTGTT--TAAGCCT---AGATGTCCCA--T 0 5'
w/o GU         ||| |  | || |    ||||||||||  | BLAST score 152.5
Target: 5' 652 CACGAGCAATCTGCCTCTCTACAGGGTCTA 681/2675 3'
Query:  3' 0   GTGTTTA--AGCCT---AGATGTCCCA--T 0 5'
w/GU           |||*|*   || |    ||||||||||  | BLAST score 165
Target: 5' 652 CACGAGCAATCTGCCTCTCTACAGGGTCTA 681/2675 3'

Hit # 3 by hsa-miR-145 in the CDS
Query:  3' 1   TCCCTAAGGACCCT----TT----T--------G--ACCTG 0 5'
w/o GU         |||||||||| |||    ||    |        |  ||||| BLAST score 176.5
Target: 5' 851 AGGGATTCCTTGGATTGCAACCCCATCATCTTCCAATGGAC 891/2675 3'
Query:  3' 0   TTCCCTAAGGACCCT----TT----T--------G--ACCTG 0 5'
w/GU           *|||||||||| |||    ||    |        |  ||||| BLAST score 186.5
Target: 5' 850 GAGGGATTCCTTGGATTGCAACCCCATCATCTTCCAATGGAC 891/2675 3'

Hit # 4 by hsa-miR-143 in the CDS
Query:  3' 1    CTCGATGTCACGAAG-TAGAGT 0 5'
w/o GU          |||||||||||  || || ||| BLAST score 158
Target: 5' 1115 GAGCTACAGTGGATCTAT-TCA 1135/2675 3'
Query:  3' 1    CTCGATGTCAC----G-AAG--TAGAGT 0 5'
w/GU            |||||||||||    * |||  | ||*| BLAST score 170
Target: 5' 1115 GAGCTACAGTGGATCTATTCAAAGCTTA 1142/2675 3'

Hit # 5 by hsa-miR-34 in the CDS
Query:  3' 0    TG--T-TGGTCG-A---T----------------------TCTGTGACGG--T 0 5'
w/o GU          ||  | ||| || |   |                      ||||||||||  | BLAST score 144
Target: 5' 1183 ACCCAGACCTGCCTCCGAAAATGTGCAGGAGATTAAGACTAGACACTGCCTCA 1235/2675 3'
Query:  3' 0    TGT-TGGTC---GAT-----TCTGTGACGG--T 0 5'
w/GU            |** *| *|   *||     ||||||||||  | BLAST score 170
Target: 5' 1203 ATGTGCAGGAGATTAAGACTAGACACTGCCTCA 1235/2675 3'

Hit # 6 by mmu-miR-203 in the 3'UTR
Query:  3' 0    AGA-TC--------------------------------ACCAGGATTTGTAAAGT 1 5'
w/o GU          ||| ||                                ||||||||||||||||| BLAST score 187.5
Target: 5' 1946 TCTTAGAAATATACTGCTTTTATATATGATTGTTTTGCTGGTCCTAAACATTTCA 2000/2675 3'
Query:  3' 0    AGATCACCAGGATTTGTAAAGT 1 5'
w/GU            |*|* ||||||||||||||||| BLAST score 207.5
Target: 5' 1979 TTTGCTGGTCCTAAACATTTCA 2000/2675 3'

Hit # 7 by hsa-miR-183 in the 3'UTR
Query:  3' 0    GTCACTT-----------------------------AAGATGGTCA------------CG--GTAT 0 5'
w/o GU          || ||||                             ||||||||||            ||  |||| BLAST score 166
Target: 5' 2298 CA-TGAAAATATACTGATAAATTATATGCACATATTTTCTACCAGTAGCATTATAGTGGCATCATA 2362/2675 3'
Query:  3' 0    GTCACT-T-----------------AAGATGGTCA-C--GGTAT 0 5'
w/GU            *| ||| |                 |||||||||| |  **||| BLAST score 175
Target: 5' 2308 TACTGATAAATTATATGCACATATTTTCTACCAGTAGCATTATA 2351/2675 3'

Target # 10: >gi|27735144|ref|NM_173689.1| Homo sapiens hypothetical protein FLJ38464 (FLJ38464), mRNA
CDS: 282 929
Hit # 1 by hsa-miR-210 in the 5'UTR
Query:  3' 0  GT--------------------CGGCGACAGTGTGCGTG----------------TC 0 5'
w/o GU        ||                    |||||||||||||||||                || BLAST score 176
Target: 5' 26 CACTCCGCCCCCTGCGCCCGTGGCCGCTGTCACACGCACCCCGACGGCCGCTTCGAG 82/2273 3'
Query:  3' 0  GTCGGCGACAGTGTGCGTG------TC 0 5'
w/GU          **|||||||||||||||||      *| BLAST score 199
Target: 5' 46 TGGCCGCTGTCACACGCACCCCGACGG 72/2273 3'

Hit # 2 by hsa-miR-214 in the CDS
Query:  3' 0   GACGG--------AC-A---------------------GACACGGACG----------------AC 1 5'
w/o GU         |||||        || |                     ||||||||||                || BLAST score 145
Target: 5' 383 CTGCCATTCCCACTGCTGGAGGTGGCCGTACCTGCAGCCTGTGCCTGCCTCCTCCTCCTCCTCCTG 448/2273 3'
Query:  3' 0   GACGGAC---A---------------GACACGGACG----------------AC 1 5'
w/GU           ||||* |   |               ||||||||||                || BLAST score 146.5
Target: 5' 395 CTGCTGGAGGTGGCCGTACCTGCAGCCTGTGCCTGCCTCCTCCTCCTCCTCCTG 448/2273 3'

Hit # 3 by hsa-miR-22 in the 3'UTR
Query:  3' 0    TGTCA------------------AGAAGTTGACCGTCGA--A 0 5'
w/o GU          |||||                  |||||||||| |  ||  | BLAST score 156.5
Target: 5' 1437 ACAGTGGGGAAAGAATCTGGAAGTCTTCAACTGCCGTCTGAT 1478/2273 3'
Query:  3' 0    TGTCA------------------AGAAGTTGACCGTCGA--A 0 5'
w/GU            |||||                  |||||||||| |* ||  | BLAST score 169
Target: 5' 1437 ACAGTGGGGAAAGAATCTGGAAGTCTTCAACTGCCGTCTGAT 1478/2273 3'

Hit # 4 by hsa-miR-199a in the 3'UTR
Query:  3' 0    T--TGTCCATCAG--ACTTGTGACC-C 0 5'
w/o GU          |  |||||   ||  |||||||||| | BLAST score 156
Target: 5' 1690 AGTACAGGGGCTCAGTGAACACTGGCG 1716/2273 3'
Query:  3' 0    TTG-----TCCATCAG--------------------ACTTGTGACC-C 0 5'
w/GU            |*|     *||| |||                    |||||||||| | BLAST score 170.5
Target: 5' 1669 AGCCCTCTGGGTTGTCTGCTGAGTACAGGGGCTCAGTGAACACTGGCG 1716/2273 3'

Target # 11: >gi|38201645|ref|NM_001952.3| Homo sapiens E2F transcription factor 6 (E2F6), transcript variant 1, mRNA
CDS: 293 1138
Hit # 1 by mmu-miR-204 in the CDS
Query:  3' 0   GTCCGT--A-----TC------CTACTGTTTC----CCTT 0 5'
w/o GU         ||| ||  |     ||      ||||||||||     ||| BLAST score 158.5
Target: 5' 788 CAG-CAGCTGTTTGAGTTAACAGATGACAAAGAAAATGAA 826/2342 3'
Query:  3' 0   GTC--CGTAT-C------CTACTGTTTC----CCTT 0 5'
w/GU           |||  |* |* |      ||||||||||     ||| BLAST score 166.5
Target: 5' 791 CAGCTGTTTGAGTTAACAGATGACAAAGAAAATGAA 826/2342 3'

Hit # 2 by mmu-miR-201 in the 3'UTR
Query:  3' 0    TCTT-G---T--TAC-GG-------------------------------AATGACTCAT 0 5'
w/o GU          || | |   |  ||| ||                               |||||||||| BLAST score 138.5
Target: 5' 1252 AGTAGCGGCATCATGGCCAGTAGTGTCTTTGAGGAGTTCACCACTTAGATTACTGAGTA 1310/2342 3'
Query:  3' 0    TC--TTGTTACGG----------------------AATGACTCAT 0 5'
w/GU            *|  |**|*||*|                      |||||||||| BLAST score 182
Target: 5' 1266 GGCCAGTAGTGTCTTTGAGGAGTTCACCACTTAGATTACTGAGTA 1310/2342 3'

Hit # 3 by hsa-miR-96 in the 3'UTR
Query:  3' 0    C---GTTTTTACACGAT-------------CA-C------GGTTT 0 5'
w/o GU          |   || ||||||||||             || |        ||| BLAST score 139
Target: 5' 1774 GTATCATAAATGTGCTACACATTTATGTTTGTGGATTTAATTAAA 1818/2342 3'
Query:  3' 0    CGTT---------TTTACACGAT---------CACG-GTTT 0 5'
w/GU            |*|*         ||||||||||         || * ***| BLAST score 174
Target: 5' 1768 GTAGAAGTATCATAAATGTGCTACACATTTATGTTTGTGGA 1808/2342 3'

Hit # 4 by hsa-miR-221 in the 3'UTR
Query:  3' 0    C---T---TT---------GGGTCGTCTG------TTA-----CATCGA 0 5'
w/o GU          |   |   ||         ||||||||||       ||     || ||| BLAST score 152
Target: 5' 1878 GTCTACCTAATTGCTGTCTCCCAGCAGACTGGTGGCATGCCCAGTGGCT 1926/2342 3'
Query:  3' 1    TTT---------------------GGGTCGTCTG-----T-TA-----CATCGA 0 5'
w/GU            ||*                     ||||||||||     * ||     ||*||| BLAST score 172
Target: 5' 1873 AAGCTGTCTACCTAATTGCTGTCTCCCAGCAGACTGGTGGCATGCCCAGTGGCT 1926/2342 3'

Hit # 5 by hsa-miR-28 in the 3'UTR
Query:  3' 0    GAGT----T----------------ATCTGACACTCGAGGAA 0 5'
w/o GU          ||||    |                ||||||||||||||||| BLAST score 194
Target: 5' 2190 CTCAGTTTACTCTGTAGTTTACCATTAGACTGTGAGCTCCTT 2231/2342 3'
Query:  3' 0    GAGT--T-ATCTGACACTCGAGGAA 0 5'
w/GU            *|*|  | ||||||||||||||||| BLAST score 202.5
Target: 5' 2207 TTTACCATTAGACTGTGAGCTCCTT 2231/2342 3'

Hit # 6 by hsa-miR-193 in the 3'UTR
Query:  3' 0    GA---CCCTGAAACA---------------TCCGGTCA---A 0 5'
w/o GU          ||   ||||||||||               |  |||||   | BLAST score 150.5
Target: 5' 2229 CTTGAGGGACTTTGTCATAATCACTGTTACATCCCAGTGCCT 2270/2342 3'
Query:  3' 0    GA--CCCTGAAACA---TCCGGT--CAA 0 5'
w/GU            *|  ||||||||||   |  *||  ||| BLAST score 151.5
Target: 5' 2230 TTGAGGGACTTTGTCATA-ATCACTGTT 2256/2342 3'

Hit # 7 by hsa-miR-95 in the 3'UTR
Query:  3' 0    ACGAGTTATTTA------TGGGCA---ACTT 0 5'
w/o GU          ||||||||||||      ||   |   |||| BLAST score 162
Target: 5' 2296 TGCTCAATAAATGTCTGAACAAATAAGTGAA 2326/2342 3'
Query:  3' 0    ACGAGTTATTTATGGGC------A---ACTT 0 5'
w/GU            ||||||||||||**|*|      |   |||| BLAST score 199.5
Target: 5' 2296 TGCTCAATAAATGTCTGAACAAATAAGTGAA 2326/2342 3'

Target # 12: >gi|29469070|ref|NM_014715.2| Homo sapiens Rho GTPase-activating protein (RICS), mRNA
CDS: 304 5520
Hit # 1 by hsa-miR-217 in the CDS
Query:  3' 0   T--A-GGT-----TAGTC---AAG-GACTACGTCA---T 0 5'
w/o GU         |  | |||     || ||   ||  ||||||||||   | BLAST score 159.5
Target: 5' 631 ACCTACCAGCTGTATGAGAAATTTTCTGATGCAGTTTCA 669/6480 3'
Query:  3' 0   TAGGT-TAGTC---AAG-GACTACGTCA---T 0 5'
w/GU           | |** || ||   ||* ||||||||||   | BLAST score 179
Target: 5' 638 AGCTGTATGAGAAATTTTCTGATGCAGTTTCA 669/6480 3'

Hit # 2 by hsa-miR-217 in the CDS
Query:  3' 0   TAGGT--T--AG-------------------------TCAAGGACTAC---GT---CA 1 5'
w/o GU         |||||  |  ||                         |||||||||||   ||   || BLAST score 172.5
Target: 5' 712 ATCCAGCAGCTCCCCCCACCACACTACAGAACACTGGAGTTCCTGATGAGACACTTGT 769/6480 3'
Query:  3' 0   TAGGTT----AG-------------------------TCAAGGACTAC----------------GTC-AT 0 5'
w/GU           |||||*    ||                         |||||||||||                *|| |* BLAST score 185
Target: 5' 712 ATCCAGCAGCTCCCCCCACCACACTACAGAACACTGGAGTTCCTGATGAGACACTTGTCTCTTCTAGCTG 781/6480 3'

Hit # 3 by hsa-miR-199a in the CDS
Query:  3' 0    TTGTCCATCA----------------------------------GACTTGTGAC 2 5'
w/o GU          ||||||||||                                  |||||| ||| BLAST score 156.5
Target: 5' 1767 AACAGGTAGTAGCCAATGTCAGACTCCAGGAAGCACAGCAAGCTCTGAAC-CTG 1819/6480 3'
Query:  3' 0    TTGTCCATCA----------------------------------GACTTGTGAC 2 5'
w/GU            ||||||||||                                  |||||| ||| BLAST score 156.5
Target: 5' 1767 AACAGGTAGTAGCCAATGTCAGACTCCAGGAAGCACAGCAAGCTCTGAAC-CTG 1819/6480 3'

Hit # 4 by hsa-miR-185 in the CDS
Query:  3' 2    TGAC-------G-------GAAAGAGAGG-T 0 5'
w/o GU          ||||       |       |||||||||| | BLAST score 128.5
Target: 5' 1906 ACTGAAAAGGTCGTCTATGCTTTCTCTCCGA 1936/6480 3'
Query:  3' 1    TTGACG-----GAAAGAGAGGT 0 5'
w/GU            *** |*     ||||||||||* BLAST score 147
Target: 5' 1914 GGTCGTCTATGCTTTCTCTCCG 1935/6480 3'

Hit # 5 by hsa-miR-136 in the CDS
Query:  3' 0    AGGTAGTAG---------------TTTTGTTTAC-C--TCA 0 5'
w/o GU          |||  || |               |||||||||| |  ||| BLAST score 159.5
Target: 5' 2110 TCCCCCACCCAGATAGTAAAGATGAAAACAAATGAGACAGT 2150/6480 3'
Query:  3' 0    AGGTAGTAG---------------TTTTGTTTAC-C--TCA 0 5'
w/GU            |||  || |               |||||||||| |  ||| BLAST score 159.5
Target: 5' 2110 TCCCCCACCCAGATAGTAAAGATGAAAACAAATGAGACAGT 2150/6480 3'

Hit # 6 by hsa-miR-191 in the CDS
Query:  3' 0    TCGACGA--------A-------------AA------C----------CCTAAGGCAA---C 0 5'
w/o GU          |||| ||        |             ||      |          ||||||||||   | BLAST score 147.5
Target: 5' 2265 AGCTTCTGGACAGACTCAGACAGGAGCAGTTACCCATGACCCCCCTCAGGATTCCGTTCCTG 2326/6480 3'
Query:  3' 0    TCGACGAAA---AC----------CCTAAGGCAA---C 0 5'
w/GU            ||| |*|     ||          ||||||||||   | BLAST score 150.5
Target: 5' 2289 AGCAGTTACCCATGACCCCCCTCAGGATTCCGTTCCTG 2326/6480 3'

Hit # 7 by hsa-miR-142 in the CDS
Query:  3' 0    CATC----ACGAAAGATG---------------------------A----AATAC 0 5'
w/o GU          | ||    ||||||||||                           |    ||||| BLAST score 140
Target: 5' 4316 G-AGACTTTGCTTTCTACAATCCTAGGCTGCAAGGAAAGAGCTTGTACAGTTATG 4369/6480 3'
Query:  3' 0    CATC----ACGAAAGATG---------------------------A----AATAC 0 5'
w/GU            | ||    ||||||||||                           |    ||||| BLAST score 140
Target: 5' 4316 G-AGACTTTGCTTTCTACAATCCTAGGCTGCAAGGAAAGAGCTTGTACAGTTATG 4369/6480 3'

Hit # 8 by hsa-miR-145 in the CDS
Query:  3' 2    CCCTA------------------------------AGGACCCTTTTGACCTG 0 5'
w/o GU          |||||                              ||||||||||||||||| BLAST score 197
Target: 5' 4612 GGGATCTATGTCATCCATCTGCGTAGTAAATCAGATCCTGGGAAAACTGGAC 4663/6480 3'
Query:  3' 0    TT-CCCTA------------------------------AGGACCCTTTTGACCTG 0 5'
w/GU            ** |||||                              ||||||||||||||||| BLAST score 208.5
Target: 5' 4609 GGTGGGATCTATGTCATCCATCTGCGTAGTAAATCAGATCCTGGGAAAACTGGAC 4663/6480 3'

Hit # 9 by hsa-miR-145 in the CDS
Query:  3' 0    TTCCCTAAGG---------AC-C---C---------TTTTG--ACCT 1 5'
w/o GU          ||||||||||         || |   |         | |||  |||| BLAST score 165.5
Target: 5' 4982 AAGGGATTCCAGACACTTCTGAGCCAGTCAGCTACCACAACTCTGGA 5028/6480 3'
Query:  3' 0    TTCCCTAAGG---------AC-C---C---------TTTTGA--CC-TG 0 5'
w/GU            ||||||||||         || |   |         | ||||  || ** BLAST score 167
Target: 5' 4982 AAGGGATTCCAGACACTTCTGAGCCAGTCAGCTACCACAACTCTGGAGT 5030/6480 3'

Hit # 10 by hsa-miR-24 in the 3'UTR
Query:  3' 1    ACAAGGACGA---------C-TTGAC----T---CG-GT 0 5'
w/o GU          ||||||||||         | | |||    |   || || BLAST score 148.5
Target: 5' 5942 TGTTCCTGCTTCTCCTTCAGTAGCTGCACAACTTGCGCA 5980/6480 3'
Query:  3' 0    G-ACAAGGACGA---------C-TTGAC----TCGGT 0 5'
w/GU            * ||||||||||         | |*|||    | *** BLAST score 168
Target: 5' 5940 TGTGTTCCTGCTTCTCCTTCAGTAGCTGCACAACTTG 5976/6480 3'

Target # 13: >gi|34452172|ref|NM_000887.3| Homo sapiens integrin, alpha X (antigen CD11C (p150), alpha polypeptide) (ITGAX), mRNA
CDS: 68 3559
Hit # 1 by hsa-miR-183 in the CDS
Query:  3' 0   GTC-AC--TT---------A----AGATGGTCAC--------------------------GGTA 1 5'
w/o GU         ||| ||  ||         |    ||||||||||                          |||| BLAST score 159
Target: 5' 240 CAGCTGCCAACCAAACGGGTGGCCTCTACCAGTGTGGCTACAGCACTGGTGCCTGTGAGCCCAT 303/4666 3'
Query:  3' 0   GTC-A-----------CTTA----AGATGGTCAC------------------GGTAT 0 5'
w/GU           ||| |           |**|    ||||||||||                  |**|* BLAST score 181
Target: 5' 240 CAGCTGCCAACCAAACGGGTGGCCTCTACCAGTGTGGCTACAGCACTGGTGCCTGTG 296/4666 3'

Hit # 2 by hsa-miR-217 in the CDS
Query:  3' 0   TAGGT--TAG-TCAA---GGACTACGTCA 1 5'
w/o GU         | |||  | | ||||   ||||||||||| BLAST score 178
Target: 5' 616 ACCCAGCACCCAGTTTTCCCTGATGCAGT 644/4666 3'
Query:  3' 0   TA---GGTTAG--TC---------------AA---GGACTACGTCA 1 5'
w/GU           ||   |||*|*  ||               ||   ||||||||||| BLAST score 186.5
Target: 5' 599 ATAAGCCAGTTCCAGAGACCCAGCACCCAGTTTTCCCTGATGCAGT 644/4666 3'

Hit # 3 by hsa-miR-197 in the CDS
Query:  3' 1    GA--------CCCACCTCTTCCACCAC 2 5'
w/o GU          ||        ||||||||||||||||| BLAST score 178
Target: 5' 1555 CTTGCCCAGGGGGTGGAGAAGGTGGTG 1581/4666 3'
Query:  3' 1    GA-------CCCACCTCTTCCACCACT-T 0 5'
w/GU            *|       |||||||||||||||||* * BLAST score 190
Target: 5' 1556 TTGCCCAGGGGGTGGAGAAGGTGGTGGTG 1584/4666 3'

Hit # 4 by hsa-miR-105 in the CDS
Query:  3' 0    TGT-------CCTCAGACTCG--T-AAACT 0 5'
w/o GU          |||       |||||||||||  | |  || BLAST score 146
Target: 5' 2150 ACAAAGAACCGGAGTCTGAGCCGAGTCCGA 2179/4666 3'
Query:  3' 0    TGT-------CCTCAGACTCG---------TA--A-----ACT 0 5'
w/GU            |||       |||||||||||         *|  |     ||| BLAST score 156.5
Target: 5' 2150 ACAAAGAACCGGAGTCTGAGCCGAGTCCGAGTCCTCGGGCTGA 2192/4666 3'

Hit # 5 by hsa-miR-224 in the CDS
Query:  3' 1    TT-------TGCCTTGGTGATCACT-GAA 1 5'
w/o GU          ||       |||||||||| | | | ||| BLAST score 146.5
Target: 5' 2502 AAGACTCCTACGGAACCACCA-TCACCTT 2529/4666 3'
Query:  3' 0    ATT--------------TGCCTTGGTG----------A-----------TC--AC-------TGA---AC 0 5'
w/GU            |*|              ||||||||||          |           *|  ||       *||   || BLAST score 158.5
Target: 5' 2494 TGACGGGGAAGACTCCTACGGAACCACCATCACCTTCTCCCACCCCGCAGGACTGTCCTACCGCTACGTG 2563/4666 3'

Hit # 6 by hsa-miR-127 in the CDS
Query:  3' 0    TCGGT--------TCGAGTCTGC-----------------------CTAGGCT 0 5'
w/o GU          || ||        ||||||||||                       | ||| | BLAST score 145
Target: 5' 3324 AGGCATTTATGAGAGCTCAGACGACAACGGTGCTGGAGAAGTACAAGGTCC-A 3375/4666 3'
Query:  3' 0    TCGGT----TCGAGTCTGC-----CTA-GGCT 0 5'
w/GU            | **|    ||||||||||     |*| |*|* BLAST score 178.5
Target: 5' 3328 ATTTATGAGAGCTCAGACGACAACGGTGCTGG 3359/4666 3'

Hit # 7 by mmu-miR-151 in the 3'UTR
Query:  3' 0    TGGAG-TT------CCT------------CGGAGTCAGA-------------TC 0 5'
w/o GU          ||||  ||      |||            ||||||||||             || BLAST score 159.5
Target: 5' 3802 ACCTAGAAATACATGGACAATACCCCCAGGCCTCAGTCTCCCTTCTCCCATGAG 3855/4666 3'
Query:  3' 0    TGGAGTT-------CCT------------CGGAGTCAGA-------------TC 0 5'
w/GU            |||| *|       |||            ||||||||||             || BLAST score 167.5
Target: 5' 3802 ACCTAGAAATACATGGACAATACCCCCAGGCCTCAGTCTCCCTTCTCCCATGAG 3855/4666 3'

Hit # 8 by hsa-miR-189 in the 3'UTR
Query:  3' 0    TGAC--TA------TAGTCGAGTC----------A-TCCGTG 0 5'
w/o GU          | ||  ||      ||||||||||          |  ||| | BLAST score 151
Target: 5' 4255 AGTGTCATGTCAGCATCAGCTCAGGGCTTCATCGTGGGGCTC 4296/4666 3'
Query:  3' 0    TGACTA-----------TAGTCGAGTC----------ATCCGTG 0 5'
w/GU            |*| *|           ||||||||||          |*|| *| BLAST score 172.5
Target: 5' 4252 ATTAGTGTCATGTCAGCATCAGCTCAGGGCTTCATCGTGGG-GC 4294/4666 3'

Target # 14: >gi|29789119|ref|NM_020922.1| Homo sapiens protein kinase, lysine deficient 3 (PRKWNK3), mRNA
CDS: 1 5403
Hit # 1 by mmu-miR-204 in the CDS
Query:  3' 1   TCCGTATC-------------------------------CTACTGTTTC--C--CTT 0 5'
w/o GU         ||| | ||                               ||||||||||  |  ||| BLAST score 153.5
Target: 5' 163 AGGAAGAGATTTTTCCGAAAGAGTGTTGAAATGACGGAAGATGACAAAGTTGCCGAA 219/5403 3'
Query:  3' 0   GT---C-CGTATC-----------CTACTGTTTC--C--CTT 0 5'
w/GU           |*   | |**| |           ||||||||||  |  ||| BLAST score 168
Target: 5' 178 CGAAAGAGTGTTGAAATGACGGAAGATGACAAAGTTGCCGAA 219/5403 3'

Hit # 2 by hsa-miR-145 in the CDS
Query:  3' 0   TTCC--------------------------------CTAAGGACCCTT--------------------------------T---TGACCTG 0 5'
w/o GU         ||||                                ||||||||||||                                |   |||| || BLAST score 170
Target: 5' 595 AAGGGTCTCCAGCACCCCAATATAGTTCGATTTTATGATTCCTGGGAATCTATATTAAAAGGAAAGAAATGTATTGTATTAGTGACTGAAC 685/5403 3'
Query:  3' 0   TTCC-------------------------------CTAAGGACCCTT-----------------------------------TTGAC-------CTG 0 5'
w/GU           |*||                               ||||||||||||                                   *||||       ||| BLAST score 179.5
Target: 5' 596 AGGGTCTCCAGCACCCCAATATAGTTCGATTTTATGATTCCTGGGAATCTATATTAAAAGGAAAGAAATGTATTGTATTAGTGACTGAACTAATGAC 692/5403 3'

Hit # 3 by hsa-miR-136 in the CDS
Query:  3' 0    AGG--T--AGT-------------------------AGTTTTGTTTA------CC-TCA 0 5'
w/o GU          |||  |  |||                         |||||||||||      ||  || BLAST score 159.5
Target: 5' 1125 TCCTGAAGTCAAAGAAATCATTGAAGGATGTATTCGTCAAAACAAATCTGAAAGGTTGT 1183/5403 3'
Query:  3' 0    AGGTAG-TAGTTTTGTTTA--C--CTCA 0 5'
w/GU            | *||* *|||||||||||  |   *|| BLAST score 178.5
Target: 5' 1153 TGTATTCGTCAAAACAAATCTGAAAGGT 1180/5403 3'

Hit # 4 by mmu-miR-147 in the CDS
Query:  3' 0    CC---GTCTTCGTAA----------------------------------AGGT---GT---GTG 0 5'
w/o GU          ||   ||||||||||                                  || |   ||   ||| BLAST score 144
Target: 5' 1886 GGTTACAGAAGCATTCAAAGCTGACTCAGCCGCAGATTTTGCCTTTGGTTCAAGGTCAGTCCAC 1949/5403 3'
Query:  3' 0    CC---GTCTTCGTAA----------A---GGTGTGTG 0 5'
w/GU            ||   ||||||||||          |   ||*|| |* BLAST score 165.5
Target: 5' 1886 GGTTACAGAAGCATTCAAAGCTGACTCAGCCGCAGAT 1922/5403 3'

Hit # 5 by hsa-miR-222 in the CDS
Query:  3' 0    CTCTGG--GTCATCGGTCT---ACA-TCGA 0 5'
w/o GU          ||  ||  |||||||||||    || | || BLAST score 163
Target: 5' 2506 GACTCCAACAGTAGCCAGACAGGGTCATCT 2535/5403 3'
Query:  3' 0    C-TCTGG----GTCATCGGTCT---ACA-TCGA 0 5'
w/GU            | *|||*    |||||||||||    || | || BLAST score 178.5
Target: 5' 2503 GTGGACTCCAACAGTAGCCAGACAGGGTCATCT 2535/5403 3'

Hit # 6 by hsa-miR-181b in the CDS
Query:  3' 0    T-TGGGTG-GCT--GTCGTTACTTA--------------------CAA 0 5'
w/o GU          | | | || | |  |||||||||||                    ||| BLAST score 158.5
Target: 5' 2557 ACATCTACTCAAACCAGCAATGAATCTGCTCCTCAGTCATCCCCAGTT 2604/5403 3'
Query:  3' 0    T-TGGGTGGCT---GTCGTTACTTA--------------------CAA 0 5'
w/GU            | |*|*||* |   |||||||||||                    ||| BLAST score 191.5
Target: 5' 2557 ACATCTACTCAAACCAGCAATGAATCTGCTCCTCAGTCATCCCCAGTT 2604/5403 3'

Hit # 7 by hsa-miR-96 in the CDS
Query:  3' 0    CGTT-T------TTACACGATCAC------GGTT--T 0 5'
w/o GU          | || |      ||||||||||||      ||||  | BLAST score 168
Target: 5' 2831 GTAAGATTTCTGAATGTGCTAGTGTAGAAACCAAGCA 2867/5403 3'
Query:  3' 0    CGTTT-------TTACACGATCAC------GGTTT 0 5'
w/GU            |*||*       ||||||||||||      ||||* BLAST score 197.5
Target: 5' 2831 GTAAGATTTCTGAATGTGCTAGTGTAGAAACCAAG 2865/5403 3'

Hit # 8 by hsa-miR-184 in the CDS
Query:  3' 0    TGGGAATAGTCAAGAGGCAGGT 0 5'
w/o GU          | |||||||||| |  |  ||| BLAST score 145
Target: 5' 3126 AACCTTATCAGTACAGCAGCCA 3147/5403 3'
Query:  3' 0    TG------GGAATAGTCA-------------------------AGA-GGCAGGT 0 5'
w/GU            *|      ||||||||||                         |*| **  *|| BLAST score 155
Target: 5' 3120 GCCTCAAACCTTATCAGTACAGCAGCCAGCTATGGATGCAGAGTTTATTTCTCA 3173/5403 3'

Hit # 9 by hsa-miR-107 in the CDS
Query:  3' 0    A---CTATCGGGACATGTTA----------------------------CGACGA 0 5'
w/o GU          |   ||||||||||||||||                            ||| || BLAST score 186
Target: 5' 3504 TAAAGATAGCCCTGTACAATCCCCTAATTTCCAACAGACAGGCTCTAAGCTTCT 3557/5403 3'
Query:  3' 0    A---CTATCGGGACATGTTA----------------------------CGACGA 0 5'
w/GU            |   ||||||||||||||||                            ||| || BLAST score 186
Target: 5' 3504 TAAAGATAGCCCTGTACAATCCCCTAATTTCCAACAGACAGGCTCTAAGCTTCT 3557/5403 3'

Hit # 10 by hsa-miR-190 in the CDS
Query:  3' 0    T-G---GATTATATAGT------------------TT---GTATAG 1 5'
w/o GU          | |   |||||||||||                  ||    ||| | BLAST score 140.5
Target: 5' 3578 AGCCTGCTAATATATCAGTGTTCAAAAGGGACCTGAATGTGATAAC 3623/5403 3'
Query:  3' 0    TG---GATTATATAGT------------------TTGTATAGT 0 5'
w/GU            *|   |||||||||||                  ||**|* *| BLAST score 181
Target: 5' 3579 GCCTGCTAATATATCAGTGTTCAAAAGGGACCTGAATGTGATA 3621/5403 3'

Hit # 11 by hsa-miR-221 in the CDS
Query:  3' 1    TTTGGGTCGTCTGTTACATCGA 0 5'
w/o GU          ||||||||||||  | | |||| BLAST score 170
Target: 5' 4655 AAACCCAGCAGAATAAGGAGCT 4676/5403 3'
Query:  3' 1    TTTGGGTCGTCT-GTTACATCGA 0 5'
w/GU            |||||||||||| *|| | |||| BLAST score 180.5
Target: 5' 4655 AAACCCAGCAGAATAA-GGAGCT 4676/5403 3'

Hit # 12 by hsa-miR-145 in the CDS
Query:  3' 0    TTCCCTAA-G---GACC-----CTTTTGACCT 1 5'
w/o GU          |||  |   |   || |     |||||||||| BLAST score 139
Target: 5' 5028 AAGTCAACACAAACTAGAGACAGAAAACTGGA 5059/5403 3'
Query:  3' 0    TTCCCTAA-G---GACC-----CTTTTGACCT-G 0 5'
w/GU            |||  |   |   || |     |||||||||| * BLAST score 140.5
Target: 5' 5028 AAGTCAACACAAACTAGAGACAGAAAACTGGAAT 5061/5403 3'

Hit # 13 by mmu-miR-203 in the CDS/3'UTR
Query:  3' 0    AG--ATCACCAGGATTTGTAAAGT 1 5'
w/o GU          ||  |  ||||||||||    | | BLAST score 123.5
Target: 5' 5384 TCCCTCCTGGTCCTAAA----TGA 5403/5403 3'
Query:  3' 0    AG--ATCACCAGGATTTGT 6 5'
w/GU            ||  |  ||||||||||** BLAST score 136
Target: 5' 5384 TCCCTCCTGGTCCTAAATG 5402/5403 3'

Target # 15: >gi|32698768|ref|NM_052847.1| Homo sapiens hypothetical protein FLJ00058 (FLJ00058), mRNA
CDS: 155 361
Hit # 1 by hsa-miR-145 in the 5'UTR
Query:  3' 0  TTC--C-CTAAGGACCCTTTTGA-------------CCTG 0 5'
w/o GU        |||  | ||||||||||||||||             | || BLAST score 195.5
Target: 5' 88 AAGCTGTGATTCCTGGGAAAACTAAAAAAGCTCTCTGAAC 127/4175 3'
Query:  3' 0  TTCC---------------CTAAGGACCCTTTTGA---------------------CCTG 0 5'
w/GU          |*||               ||||||||||||||||                     ||*| BLAST score 206
Target: 5' 76 AGGGTGTACAGCAAGCTGTGATTCCTGGGAAAACTAAAAAAGCTCTCTGAACAACGGGGC 135/4175 3'

Hit # 2 by hsa-miR-221 in the 5'UTR/CDS
Query:  3' 0   CTT-T------GGGT---------CGTCTGTTACA-TC---GA 0 5'
w/o GU         ||| |      ||||         ||||||||||| ||   || BLAST score 180
Target: 5' 124 GAACAACGGGGCCCAGAGCTGATGGCAGACAATGTCAGCCACT 166/4175 3'
Query:  3' 0   CTTTGGGT---------CGTCTGTTACA-TC---GA 0 5'
w/GU           |***||||         ||||||||||| ||   || BLAST score 199.5
Target: 5' 131 GGGGCCCAGAGCTGATGGCAGACAATGTCAGCCACT 166/4175 3'

Hit # 3 by hsa-miR-181b in the 3'UTR
Query:  3' 0   TTGGGTGGC--TGT------------CGTTACTTAC 2 5'
w/o GU         |||||  ||  | |            |||||||||| BLAST score 159.5
Target: 5' 950 AACCCGTCGCTAAACTGCACGATCCTGCAATGAATG 985/4175 3'
Query:  3' 0   TTGGGTGGCTGT--------------CGTTACTTAC 2 5'
w/GU           |||||**|| *|              |||||||||| BLAST score 192.5
Target: 5' 950 AACCCGTCGCTAAACTGCACGATCCTGCAATGAATG 985/4175 3'

Hit # 4 by hsa-miR-140as in the 3'UTR
Query:  3' 2    GC--ACCAAGATGGGACAC---------CAT 0 5'
w/o GU          ||  |||  ||||||||||         ||| BLAST score 153.5
Target: 5' 1597 CGGGTGGGGCTACCCTGTGCTGCTGTGTGTA 1627/4175 3'
Query:  3' 2    GC--ACCAAGATGGGACAC-----CAT 0 5'
w/GU            ||  |||  ||||||||||     ||* BLAST score 155.5
Target: 5' 1597 CGGGTGGGGCTACCCTGTGCTGCTGTG 1623/4175 3'

Hit # 5 by hsa-miR-222 in the 3'UTR
Query:  3' 0    CTCTG-GGTCATCGGTCTACAT--CG 1 5'
w/o GU          ||||| ||||||||||| || |  || BLAST score 187.5
Target: 5' 3380 GAGACACCAGTAGCCAGGTGAAGGGC 3405/4175 3'
Query:  3' 0    CTCTG-GGTCATCGGTCTAC--ATCG 1 5'
w/GU            ||||| |||||||||||*||   *|| BLAST score 200
Target: 5' 3380 GAGACACCAGTAGCCAGGTGAAGGGC 3405/4175 3'

Hit # 6 by hsa-miR-152 in the 3'UTR
Query:  3' 0    GGTTCAAGAC--------------------AGTACGT-GAC 1 5'
w/o GU          ||||||||||                    |||  || ||| BLAST score 148.5
Target: 5' 3734 CCAAGTTCTGGGGCAGGTAGGAGAGGGCCGTCACACACCTG 3774/4175 3'
Query:  3' 0    GGTTCAAGAC--------------------A--------GTA--CGTG-ACT 0 5'
w/GU            ||||||||||                    |        **|  || | ||| BLAST score 150
Target: 5' 3734 CCAAGTTCTGGGGCAGGTAGGAGAGGGCCGTCACACACCTGTCCGCCCGTGA 3785/4175 3'

Target # 16: >gi|27500510|ref|XM_209051.1| Homo sapiens similar to TCAM-1 (LOC284171), mRNA
CDS: 780 1055
Hit # 1 by hsa-miR-186 in the 5'UTR
Query:  3' 0   T-TCGGGTTTTCCTCTTA------------AGAA--AC 0 5'
w/o GU         | ||||||||||||||||            ||||  || BLAST score 198.5
Target: 5' 612 AGAGCCCAAAAGGAGAATGACAGATGCAATTCTTCCTG 649/3317 3'
Query:  3' 0   TTCGGGTTTTCCTCTTA------------AGAA--AC 0 5'
w/GU           *||||||||||||||||            ||||  || BLAST score 207
Target: 5' 613 GAGCCCAAAAGGAGAATGACAGATGCAATTCTTCCTG 649/3317 3'

Hit # 2 by hsa-miR-28 in the 5'UTR/CDS
Query:  3' 0   GAG-----------T-------TA-----TCTGACACTCGA-G-------GA 1 5'
w/o GU         |||           |       ||     |||||||||||| |       || BLAST score 154.5
Target: 5' 758 CTCTTCCCTTTTGGAGGCTGGGATGGCGGAGACTGTGAGCTGCGAGGTGGCT 809/3317 3'
Query:  3' 0   GAGTT----A----------TCTGACACTCGA---------------G-GAA 0 5'
w/GU           *|***    |          ||||||||||||               * *|| BLAST score 173
Target: 5' 767 TTTGGAGGCTGGGATGGCGGAGACTGTGAGCTGCGAGGTGGCTAGGGTGTTT 818/3317 3'

Hit # 3 by hsa-miR-28 in the CDS
Query:  3' 0   GAGTTATCTGA--C---ACTCGAGGAA 0 5'
w/o GU         ||  | ||||   |   |||||||||| BLAST score 145.5
Target: 5' 849 CTGGA-AGACCAAGAGCTGAGCTCCTT 874/3317 3'
Query:  3' 0   GAG--TTATCTGA--C---ACTCGAGGAA 0 5'
w/GU           *||  ** ||||   |   |||||||||| BLAST score 167.5
Target: 5' 846 TTCCTGGAAGACCAAGAGCTGAGCTCCTT 874/3317 3'

Hit # 4 by mmu-miR-132 in the 3'UTR
Query:  3' 0    TGCTG-------G---------TA--CCGACATCTG--------AC---AA 1 5'
w/o GU          || ||       |         ||  ||||||||||        ||   || BLAST score 147
Target: 5' 1058 AC-ACAGAGTAACGGGTTGGTGATTCGGCTGTAGACATCCCTGCTGCCCTT 1107/3317 3'
Query:  3' 0    TGCT-GGT-A-----CCGACATCTG--------AC----AAT 0 5'
w/GU            |||* *** |     ||||||||||        ||    ||* BLAST score 180.5
Target: 5' 1068 ACGGGTTGGTGATTCGGCTGTAGACATCCCTGCTGCCCTTTG 1109/3317 3'

Hit # 5 by hsa-miR-188 in the 3'UTR
Query:  3' 1    GGGAGGTGGT----A---CG--TTCCCTA 1 5'
w/o GU          ||||||||||    |   ||  || | || BLAST score 146.5
Target: 5' 1157 CCCTCCACCAATCCTGGAGCTAAAAGAAT 1185/3317 3'
Query:  3' 0    T---GGGAGGTGGT----------------------------A-CGTTCC---C------TAC 0 5'
w/GU            *   ||||||||||                            | |||*||   |      ||| BLAST score 159.5
Target: 5' 1153 GCTTCCCTCCACCAATCCTGGAGCTAAAAGAATCATACCCATTGGCAGGGACCGACATTAATG 1215/3317 3'

Hit # 6 by hsa-miR-221 in the 3'UTR
Query:  3' 0    CTTTGGGTCG---TCTG----TTACATCGA 0 5'
w/o GU          ||||||||||   || |      |||| || BLAST score 160.5
Target: 5' 1507 GAAACCCAGCTCCAGCCTTGGTGTGTACCT 1536/3317 3'
Query:  3' 0    CTTTGGGTCG--------------------TC-TGTTACATC-GA 0 5'
w/GU            ||||||||||                    *| |*** ||*| || BLAST score 182.5
Target: 5' 1507 GAAACCCAGCTCCAGCCTTGGTGTGTACCTGGAATGGGGTGGTCT 1551/3317 3'

Hit # 7 by hsa-miR-143 in the 3'UTR
Query:  3' 0    ACT------------------CGATG-----T-CACGAAGTAG--A-GT 0 5'
w/o GU          |||                  ||| |     | ||||||||||  | || BLAST score 154
Target: 5' 2442 TGATTTGTAAGAAGGCCTCTTGCTCCTTGCCAGGTGCTTCATCAGTCCA 2490/3317 3'
Query:  3' 0    ACTCGATGT------------------------CACGAAGTAG---------AGT 0 5'
w/GU            ||| *|**|                        ||||||||||         |*| BLAST score 175
Target: 5' 2442 TGATTTGTAAGAAGGCCTCTTGCTCCTTGCCAGGTGCTTCATCAGTCCACTCTTA 2496/3317 3'

Target # 17: >gi|25121964|ref|NM_024016.2| Homo sapiens homeo box B8 (HOXB8), mRNA
CDS: 236 967
Hit # 1 by hsa-miR-182 in the CDS
Query:  3' 1   CA-----------CTCAAGATGGT----------A---AC-GGT 2 5'
w/o GU         ||           |||||||||||          |   || ||| BLAST score 145.5
Target: 5' 388 GTCGCAAATCCAGGAGTTCTACCACGGGCCGTCGTCGCTGTCCA 431/1823 3'
Query:  3' 1   CA-----------CTCAAGATGGT----------A---AC-GGT-TT 0 5'
w/GU           ||           |||||||||||          |   || ||| ** BLAST score 157
Target: 5' 388 GTCGCAAATCCAGGAGTTCTACCACGGGCCGTCGTCGCTGTCCACGG 434/1823 3'

Hit # 2 by hsa-miR-196 in the 3'UTR
Query:  3' 0    GGTTGTTGTACTTTGATGGAT 0 5'
w/o GU          |||||||||||||||| |||| BLAST score 197.5
Target: 5' 1379 CCAACAACATGAAACTGCCTA 1399/1823 3'
Query:  3' 0    GGTTGTTGTACTTTGATGGAT 0 5'
w/GU            ||||||||||||||||*|||| BLAST score 210
Target: 5' 1379 CCAACAACATGAAACTGCCTA 1399/1823 3'

Hit # 3 by hsa-miR-198 in the 3'UTR
Query:  3' 0    GGATAGAGGGGAGAC-CTGG 0 5'
w/o GU          ||| |||||||||||  ||| BLAST score 156.5
Target: 5' 1500 CCTCTCTCCCCTCTGCAACC 1519/1823 3'
Query:  3' 0    GGATAGAGGGGAGAC-----------------CTGG 0 5'
w/GU            ||| |||||||||||                 |*|* BLAST score 161
Target: 5' 1500 CCTCTCTCCCCTCTGCAACCCCCCAGCTCGCTGGCT 1535/1823 3'

Target # 18: >gi|4504486|ref|NM_002152.1| Homo sapiens histidine rich calcium binding protein (HRC), mRNA
CDS: 171 2270
Hit # 1 by hsa-miR-128a in the 5'UTR
Query:  3' 0  TTTTCTCTGG--------------------------C---CAAGTGACAC 1 5'
w/o GU        ||||||||||                          |   || |||  || BLAST score 142
Target: 5' 81 AAAAGAGACCAACCCCAAAGGGACAAAGACCCCAACGTTTGTCCACATTG 130/2365 3'
Query:  3' 0  TTTTCTCTGG-----------------C--------CAAG------TGA------CACT 0 5'
w/GU          ||||||||||                 |        |||*      |*|      | |* BLAST score 157
Target: 5' 81 AAAAGAGACCAACCCCAAAGGGACAAAGACCCCAACGTTTGTCCACATTGCCGCAGAGG 139/2365 3'

Hit # 2 by hsa-miR-149 in the CDS
Query:  3' 0   CCTCACTTCTGTGCCT------------CG-GTC 1 5'
w/o GU         ||||||||||||||||            || ||| BLAST score 187.5
Target: 5' 583 GGAGTGAAGACACGGAAGACTCAGCTGAGCACAG 616/2365 3'
Query:  3' 0   CCTCACTTCTGTGCCT------------CG-GTCT 0 5'
w/GU           ||||||||||||||||            || |||* BLAST score 197.5
Target: 5' 583 GGAGTGAAGACACGGAAGACTCAGCTGAGCACAGG 617/2365 3'

Hit # 3 by hsa-miR-149 in the CDS
Query:  3' 0   CCTCACTTCT-------------------------------GTGCC----TCGGTCT 0 5'
w/o GU         ||||||||||                               || ||    ||||| | BLAST score 161.5
Target: 5' 829 GGAGTGAAGAGGATGAGGATGTCTCAGATGGACACCATCATCATGGCCCCAGCCACA 885/2365 3'
Query:  3' 0   CCTCACTTCT---GTGCCT-C--GGTCT 0 5'
w/GU           ||||||||||   ** ||| |  *|||| BLAST score 180.5
Target: 5' 829 GGAGTGAAGAGGATGAGGATGTCTCAGA 856/2365 3'

Hit # 4 by hsa-miR-186 in the CDS
Query:  3' 0    TTCGG------------------G--------TTTTCCTCTT----------------AAGAAAC 0 5'
w/o GU          |||||                  |        ||||||||||                | |  || BLAST score 147.5
Target: 5' 1592 AAGCCATTTGAGGAAGGATGATTCTGAGGAGGAAAAGGAGAAGGAAGAGGACCCCGGCTCCCATG 1656/2365 3'
Query:  3' 0    TTCGGG-------TTTTCCTCTT----------------AAGAAAC 0 5'
w/GU            *| *|*       ||||||||||                | |  || BLAST score 152.5
Target: 5' 1611 GATTCTGAGGAGGAAAAGGAGAAGGAAGAGGACCCCGGCTCCCATG 1656/2365 3'

Hit # 5 by mmu-miR-129b in the CDS
Query:  3' 2    GT---TCGGGTCTGG---CG----T--TTTTC 0 5'
w/o GU          ||   ||||||||||   ||    |  || || BLAST score 149.5
Target: 5' 1852 CACTGAGCCCAGACCACAGCGAGGAGGAAGAG 1883/2365 3'
Query:  3' 0    TTGTTCGGGTCTGG---CGTTTTTC 0 5'
w/GU            | **||||||||||   ||*|**|| BLAST score 198
Target: 5' 1853 ACTGAGCCCAGACCACAGCGAGGAG 1877/2365 3'

Hit # 6 by hsa-miR-183 in the CDS
Query:  3' 0    GT-C--ACT--TAA-GATGGTCACGGT----------------AT 0 5'
w/o GU          || |  |||  | | | ||||||||||                || BLAST score 154
Target: 5' 2114 CATGGGTGAGCACTGCGACCAGTGCCAGCACTGTCAGTTCTGCTA 2158/2365 3'
Query:  3' 0    GTC-ACTTAAGA---TGGTCACGGT----AT 0 5'
w/GU            **| |||*  ||   ||||||||||    |* BLAST score 177
Target: 5' 2116 TGGGTGAGCACTGCGACCAGTGCCAGCACTG 2146/2365 3'

Hit # 7 by mmu-miR-106b in the CDS
Query:  3' 0    TAG--A----CGTGACAGTC-----G-T-GAAA 0 5'
w/o GU          | |  |    ||||||||||     | | || | BLAST score 128.5
Target: 5' 2131 ACCAGTGCCAGCACTGTCAGTTCTGCTATCTCT 2163/2365 3'
Query:  3' 0    TAGACGTGACAGTC---GTGAAA 0 5'
w/GU            * | ||||||||||   **|| | BLAST score 153
Target: 5' 2137 GCCAGCACTGTCAGTTCTGCTAT 2159/2365 3'

Target # 19: >gi|24475844|ref|NM_153487.2| Homo sapiens MAM domain containing glycosylphosphatidylinositol anchor 1 (MDGA1), mRNA
CDS: 1180 4047
Hit # 1 by hsa-miR-31 in the CDS
Query:  3' 0    GTC--GATACGGTCG---TAGAACGG 0 5'
w/o GU          |||  ||||||||||   | | |||| BLAST score 160.5
Target: 5' 1798 CAGGACTATGCCAGCTACA-CCTGCC 1822/8907 3'
Query:  3' 0    GTC--GATACGGTCG--------------TAGA-ACG-G 0 5'
w/GU            |||  ||||||||||              *||| ||| * BLAST score 169
Target: 5' 1798 CAGGACTATGCCAGCTACACCTGCCAGGTGTCTGTGCGT 1836/8907 3'

Hit # 2 by hsa-miR-197 in the CDS
Query:  3' 0    CG----ACCCA-----------CCTCTTCCAC-----------C-A---CTT 0 5'
w/o GU          ||    ||| |           ||||||||||           | |   ||| BLAST score 152.5
Target: 5' 2249 GCCACGTGGATGCAGTGCCCCAGGAGAAGGTGACCTACCAGTGGTTCAAGAA 2300/8907 3'
Query:  3' 0    CG----ACCCA-----------CCTCTTCCAC--------CACT---T 0 5'
w/GU            ||    ||| |           ||||||||||        |||*   | BLAST score 162.5
Target: 5' 2249 GCCACGTGGATGCAGTGCCCCAGGAGAAGGTGACCTACCAGTGGTTCA 2296/8907 3'

Hit # 3 by hsa-miR-16 in the CDS
Query:  3' 0    GC--------------GGTT----ATAA--ATGCACGACG--A--T 0 5'
w/o GU          ||              ||||    || |  ||||||||||  |  | BLAST score 155.5
Target: 5' 3121 CGCAGCCACAAGCTGTCCAAGAACTACTCCTACGTGCTGCAGTGGA 3166/8907 3'
Query:  3' 0    GCGG-TT----ATAA--ATGCACGACG--AT 0 5'
w/GU            *|*| ||    || |  ||||||||||  |* BLAST score 171
Target: 5' 3134 TGTCCAAGAACTACTCCTACGTGCTGCAGTG 3164/8907 3'

Hit # 4 by hsa-miR-197 in the CDS
Query:  3' 0    CG--ACC-----------------------CACCTCTTCC---------ACC---------ACT---T 0 5'
w/o GU          ||  |||                       ||||||||||         |||         |||   | BLAST score 157
Target: 5' 3241 GCGGTGGTCAAGGCCATCCCGGTCCGGCGTGTGGAGAAGGGGCAGCTGCTGGAGTACATCCTGACCGA 3308/8907 3'
Query:  3' 0    CG--ACC-----------------------CACCTCTTCC------ACCACTT 0 5'
w/GU            ||  |||                       ||||||||||      || ||*| BLAST score 168
Target: 5' 3241 GCGGTGGTCAAGGCCATCCCGGTCCGGCGTGTGGAGAAGGGGCAGCTGCTGGA 3293/8907 3'

Hit # 5 by hsa-miR-181b in the CDS
Query:  3' 0    TT----------GGGTGGCTGT------CGT---TACT----------TACAA 0 5'
w/o GU          ||          ||||||||||      |||    |||          ||||| BLAST score 181
Target: 5' 3541 AACACTGGTCCCCCCACCGACATAAGTGGCACCCCTGAGGGCTACTACATGTT 3593/8907 3'
Query:  3' 0    TT----GGGTGGCTGT---CGTT------ACTTACAA 0 5'
w/GU            **    ||||||||||   |***      |||* | | BLAST score 184.5
Target: 5' 3547 GGTCCCCCCACCGACATAAGTGGCACCCCTGAGGGCT 3583/8907 3'

Hit # 6 by hsa-miR-127 in the CDS
Query:  3' 0    TC---GG----TTCGAGTCTGCCTAGGCT 0 5'
w/o GU          ||   ||    |||  ||||||||||| | BLAST score 159
Target: 5' 3923 AGTGTCCCCGGAAG--CAGACGGATCCCA 3949/8907 3'
Query:  3' 0    TCGGTTCG-A---------GTCTGCCTAGGCT 0 5'
w/GU            *|  *||* |         ||||||||||| | BLAST score 161.5
Target: 5' 3918 GGGGGAGTGTCCCCGGAAGCAGACGGATCCCA 3949/8907 3'

Hit # 7 by hsa-miR-210 in the 3'UTR
Query:  3' 0    GTC---GG----------------------CGACA----------GTGTGCGTGT 1 5'
w/o GU          |||   ||                      |||||          |||||||||| BLAST score 158.5
Target: 5' 4207 CAGAGGCCAGGCACTGAGGCCCTGGAGACAGCTGTTCCACTTGCACACACGCACA 4261/8907 3'
Query:  3' 0    GTCGGCGAC---A----GTGTGCGTGT 1 5'
w/GU            ||||*|*|    |    |||||||||| BLAST score 168
Target: 5' 4235 CAGCTGTTCCACTTGCACACACGCACA 4261/8907 3'

Hit # 8 by hsa-miR-193 in the 3'UTR
Query:  3' 0    G---ACCCTGAAAC----------------------------------------ATCCGGTCAA 0 5'
w/o GU          |   ||||||||||                                        |||| ||  | BLAST score 135
Target: 5' 4574 CAGGTGGGACTTTGCGAGCTCTGTGACTGTCCCACGTCCAGGAGACAAGGAAGGTAGGGCACCT 4637/8907 3'
Query:  3' 0    G---ACCCTGAAAC-ATCCGGTCA---A 0 5'
w/GU            |   ||||||||||  || *| ||   | BLAST score 145
Target: 5' 4574 CAGGTGGGACTTTGCGAGCTCTGTGACT 4601/8907 3'

Hit # 9 by hsa-miR-148 in the 3'UTR
Query:  3' 0    TGTTT--------------CAAGACATCA------------CG-T----GACT 0 5'
w/o GU          | | |              ||||||||||            || |    |||| BLAST score 147.5
Target: 5' 5574 ATAGACTCTGTCCAGCCCTGTTCTGTAGTCTCAAGCTGCCTGCGATGGCCTGA 5626/8907 3'
Query:  3' 0    TGTTT--------------CAAGACATCA------------CGTGACT 0 5'
w/GU            |*|*|              ||||||||||            ||* ||* BLAST score 178.5
Target: 5' 5574 ATAGACTCTGTCCAGCCCTGTTCTGTAGTCTCAAGCTGCCTGCGATGG 5621/8907 3'

Hit # 10 by hsa-miR-28 in the 3'UTR
Query:  3' 0    GAGTT-ATCTGACACTCGAGGA--A 0 5'
w/o GU          | ||| ||||||||||||||||  | BLAST score 190
Target: 5' 6040 CCCAACTAGACTGTGAGCTCCTCCT 6064/8907 3'
Query:  3' 0    GAGTT-ATCTGACACTCGAGGA--A 0 5'
w/GU            | ||| ||||||||||||||||  | BLAST score 190
Target: 5' 6040 CCCAACTAGACTGTGAGCTCCTCCT 6064/8907 3'

Hit # 11 by hsa-miR-205 in the 3'UTR
Query:  3' 0    GTC-TG---A----------------------------GGCCACCTTAC--------TTCCT 0 5'
w/o GU          ||| ||   |                            |||||||||||        ||  | BLAST score 143
Target: 5' 6114 CAGCACAAGTGAGCCTGGTGTGGAAACCACTCCATTGCCCGGTGGAATGGATTCTGTAATCA 6175/8907 3'
Query:  3' 0    GTCT--G---A-------GGCCACCTTACTT----CCT 0 5'
w/GU            **||  |   |       |||||||||||*|    | | BLAST score 167.5
Target: 5' 6134 TGGAAACCACTCCATTGCCCGGTGGAATGGATTCTGTA 6171/8907 3'

Hit # 12 by hsa-miR-214 in the 3'UTR
Query:  3' 0    GACGGACA-------------------GACACGGACGACA 0 5'
w/o GU          || ||| |                   ||||||||||| | BLAST score 149
Target: 5' 6419 CTCCCTCTTTGGGGTTCCCAAGGCACCCTGTGCCTGCT-T 6457/8907 3'
Query:  3' 0    GACGGAC---A------------GACACGGACGACA 0 5'
w/GU            || **||   |            ||||||||||| | BLAST score 155.5
Target: 5' 6423 CTCTTTGGGGTTCCCAAGGCACCCTGTGCCTGCT-T 6457/8907 3'

Hit # 13 by hsa-miR-31 in the 3'UTR
Query:  3' 0    GTC---GATA------------------CGGTCGTAGA------------ACG-G 0 5'
w/o GU          |||   || |                  ||||||||||            ||| | BLAST score 148.5
Target: 5' 6935 CAGTGTCTGTGTCTGTGTGTGCCTGTGAGCCAGCATCTCTGTATCAGTGTTGCTC 6989/8907 3'
Query:  3' 0    GTCGATA--CGGTCGTAGA---------ACGG 0 5'
w/GU            ** ||*|  ||||||||||         ||** BLAST score 176
Target: 5' 6954 TGCCTGTGAGCCAGCATCTCTGTATCAGTGTT 6985/8907 3'

Target # 20: >gi|16306478|ref|NM_018718.1| Homo sapiens testis specific, 14 (TSGA14), mRNA
CDS: 48 1169
Hit # 1 by hsa-miR-31 in the CDS
Query:  3' 0   GTC---------------GA-T------------ACGGTCGTAGAACGG 0 5'
w/o GU         |||               || |            ||||||||||||||| BLAST score 172
Target: 5' 822 CAGAAATTCCCGGAAGGACTGATTACTGGTTCCCTGCCAGCATCTTGCC 870/3526 3'
Query:  3' 0   GTCGAT--ACGGTCGTAGAACGG 0 5'
w/GU           **|*|   ||||||||||||||| BLAST score 188.5
Target: 5' 848 TGGTTCCCTGCCAGCATCTTGCC 870/3526 3'

Hit # 2 by hsa-miR-216 in the CDS
Query:  3' 0   GTGTCA--------ACGGTCGACTCTAAT 0 5'
w/o GU         || ||         | |||||||||| || BLAST score 148
Target: 5' 914 CAAAGGGCCACCCCTACCAGCTGAGAATA 942/3526 3'
Query:  3' 0   GTGTCA--------ACGGTCGACTCTAAT 0 5'
w/GU           || ||         | |||||||||| || BLAST score 148
Target: 5' 914 CAAAGGGCCACCCCTACCAGCTGAGAATA 942/3526 3'

Hit # 3 by hsa-miR-105 in the 3'UTR
Query:  3' 0    TG--TCC-T-------CA--------------------GACTCGTAAA--------------------CT 0 5'
w/o GU          ||  ||| |       ||                    ||||||||||                    || BLAST score 135
Target: 5' 1182 ACTTAGGCAAATAAATGTTCTTCCTCTTTTCAGAACCCCTGAGCATTTCCCAAGTTGGGTCATTTCCAGA 1251/3526 3'
Query:  3' 0    TG--TCC-T-------CA--------------------GACTCGTAAA--------CT 0 5'
w/GU            ||  ||| |       ||                    ||||||||||        |* BLAST score 141
Target: 5' 1182 ACTTAGGCAAATAAATGTTCTTCCTCTTTTCAGAACCCCTGAGCATTTCCCAAGTTGG 1239/3526 3'

Hit # 4 by hsa-miR-19b in the 3'UTR
Query:  3' 0    AGT--------------------CAAAACGTAC------C---TAAACGTGT 0 5'
w/o GU          |||                    ||||||||||      |   || | || | BLAST score 148
Target: 5' 3334 TCAAAAGAGCTGTTCTAATCTGCGTTTTGCATGTTAAGTGTTAATAT-CAAA 3384/3526 3'
Query:  3' 0    AG-T-CAAAACGTAC------C------------TAA-ACGTGT 0 5'
w/GU            || * ||||||||||      |            ||| | *||* BLAST score 167
Target: 5' 3352 TCTGCGTTTTGCATGTTAAGTGTTAATATCAAACATTCTTTACG 3395/3526 3'

Hit # 5 by hsa-miR-190 in the 3'UTR
Query:  3' 0    T-G----GATTA------------------------TATAGTTTGTATAG---T 0 5'
w/o GU          | |    |||||                        ||||||||||| ||   | BLAST score 153.5
Target: 5' 3341 AGCTGTTCTAATCTGCGTTTTGCATGTTAAGTGTTAATATCAAACAT-TCTTTA 3393/3526 3'
Query:  3' 0    TGGATTA----TATAGTTTGTA------------------TAGT 0 5'
w/GU            *** |*|    |||||||||||                  ||** BLAST score 180.5
Target: 5' 3366 GTTAAGTGTTAATATCAAACATTCTTTACGTGCTCGAGGTATTG 3409/3526 3'

Hit # 6 by hsa-miR-16 in the 3'UTR
Query:  3' 0    G-CG------G------------TTAT----------AAATGCACGA---CGAT 0 5'
w/o GU          | ||      |            ||||          ||||||||||   | || BLAST score 151.5
Target: 5' 3353 CTGCGTTTTGCATGTTAAGTGTTAATATCAAACATTCTTTACGTGCTCGAGGTA 3406/3526 3'
Query:  3' 0    GCGGTTAT----------AAATGCACGA----C--GAT 0 5'
w/GU            *|**||||          ||||||||||    |  *|* BLAST score 188
Target: 5' 3372 TGTTAATATCAAACATTCTTTACGTGCTCGAGGTATTG 3409/3526 3'

Hit # 7 by hsa-miR-130a in the 3'UTR
Query:  3' 0    CG-G---------GAAAATTGTAACGTG--AC 0 5'
w/o GU          || |         |||||||||||  ||  || BLAST score 145
Target: 5' 3397 GCTCGAGGTATTGCTTTTAACATTCTACTTTG 3428/3526 3'
Query:  3' 0    CGG----------GAAAATTGTAACGT--GAC 0 5'
w/GU            ||*          ||||||||||| *|  *|| BLAST score 165.5
Target: 5' 3397 GCTCGAGGTATTGCTTTTAACATTCTACTTTG 3428/3526 3'

Target # 21: >gi|16418478|ref|NM_006596.2| Homo sapiens polymerase (DNA directed), theta (POLQ), mRNA
CDS: 1 8175
Hit # 1 by hsa-miR-199a in the CDS
Query:  3' 0   TT-----G------TCCATCAGACTTGTGACC-C 0 5'
w/o GU         ||     |      ||  ||| |||||||||| | BLAST score 152.5
Target: 5' 272 AATTATGCTCTATTAGAAAGTTTGAACACTGGCG 305/9061 3'
Query:  3' 0   TTGTCCATCAGACTTGTGACC-C 0 5'
w/GU           | *||  |||*|||||||||| | BLAST score 174
Target: 5' 283 ATTAGAAAGTTTGAACACTGGCG 305/9061 3'

Hit # 2 by hsa-miR-217 in the CDS
Query:  3' 0   TAGGTT---A-GTCAAGGACT-A--CGTCAT 0 5'
w/o GU         || |||   | |||||||||| |  | | || BLAST score 167
Target: 5' 567 ATGCAAGCCTACAGTTCCTGACTACGAAATA 597/9061 3'
Query:  3' 0   TAGGTT---A-GTCAAGGACT-A--CGTCAT 0 5'
w/GU           || |||   | |||||||||| |  | | || BLAST score 167
Target: 5' 567 ATGCAAGCCTACAGTTCCTGACTACGAAATA 597/9061 3'

Hit # 3 by mmu-miR-135 in the CDS
Query:  3' 0   AAGTG-T--ATCCTTATTTT------------------TC-------GGTA-T 0 5'
w/o GU         ||||  |  |||||||||||                  ||       |||| | BLAST score 173
Target: 5' 881 TTCAGGAAGTAGGAATAAAAGTAGACGGTTATATGGGCAGCACCTCTCCATCA 933/9061 3'
Query:  3' 0   AAGTGT---ATCCTTATTTT------TCGGTAT 0 5'
w/GU           |||| *   |||||||||||      *|**||| BLAST score 207
Target: 5' 881 TTCAGGAAGTAGGAATAAAAGTAGACGGTTATA 913/9061 3'

Hit # 4 by hsa-miR-31 in the CDS
Query:  3' 0    GT-CGATACG----------------GTCGTAGAACGG 0 5'
w/o GU          || | | |||                |||||||||| | BLAST score 148
Target: 5' 1104 CAAGATTTGCTATATTACTCGGAAATCAGCATCTTGTC 1141/9061 3'
Query:  3' 0    GT------CGATA-------C----GGTCGTAGAACGG 0 5'
w/GU            ||      |||||       |    *||||||||||*| BLAST score 177.5
Target: 5' 1104 CAAGATTTGCTATATTACTCGGAAATCAGCATCTTGTC 1141/9061 3'

Hit # 5 by hsa-miR-22 in the CDS
Query:  3' 1    GTC-A-AGAAG----------------------TTGACCGTCGAA 0 5'
w/o GU          ||| | ||| |                      |||||||||| | BLAST score 149
Target: 5' 1950 CAGCTGTCTGCAAAGACGAGAAGGAGAAGAAGTAACTGGCAGCAT 1994/9061 3'
Query:  3' 0    TGTC-A-AGAAG----------------------TTGACCGTCGAA 0 5'
w/GU            *||| | ||| |                      |||||||||| | BLAST score 159
Target: 5' 1949 GCAGCTGTCTGCAAAGACGAGAAGGAGAAGAAGTAACTGGCAGCAT 1994/9061 3'

Hit # 6 by hsa-miR-222 in the CDS
Query:  3' 0    CT---------CTGGG-------------------TCATCGGTCT--ACATC 2 5'
w/o GU          ||         | |||                   ||||||||||  || || BLAST score 150
Target: 5' 2473 GAGGGGTTCTTGGCCCGTTGTGTGAAAGGAAAAGTAGTAGCCAGAACTG-AG 2523/9061 3'
Query:  3' 0    CTCTGGG--------------------------TCATCGGTCT--------------A-C-----ATCG 1 5'
w/GU            |*|***|                          ||||||||||              | |     |*|| BLAST score 175
Target: 5' 2475 GGGGTTCTTGGCCCGTTGTGTGAAAGGAAAAGTAGTAGCCAGAACTGAGAGACAGCATCGACAAATGGC 2543/9061 3'

Hit # 7 by hsa-miR-24 in the CDS
Query:  3' 0    GACAAGGACGACTTG---------A--CTCGGT 0 5'
w/o GU          || ||||||||||||         |  |||| | BLAST score 173.5
Target: 5' 4523 CTTTTCCTGCTGAACAGCACCCTCTAGGAGCGA 4555/9061 3'
Query:  3' 0    GACAAGGACGACTTG---------A--CTC---GGT 0 5'
w/GU            || ||||||||||||         |  |||   |*| BLAST score 176.5
Target: 5' 4523 CTTTTCCTGCTGAACAGCACCCTCTAGGAGCGACTA 4558/9061 3'

Hit # 8 by hsa-miR-217 in the CDS
Query:  3' 0    T-AGGTT-A----------------------GTCAAGGACT--------------ACGTCA-T 0 5'
w/o GU          | ||| | |                      ||||||||||              || ||| | BLAST score 149.5
Target: 5' 4801 ACTCCCACTGGTGTAGAAGGAGAATGTCTTCCAGTTCCTGAAACAAGTTTGAATATG-AGTGA 4862/9061 3'
Query:  3' 0    TAGGTT--------A------GTCAAGGACT--------AC----G-TCAT 0 5'
w/GU            *| *|*        |      ||||||||||        ||    * |||* BLAST score 174
Target: 5' 4811 GTGTAGAAGGAGAATGTCTTCCAGTTCCTGAAACAAGTTTGAATATGAGTG 4861/9061 3'

Hit # 9 by hsa-miR-219 in the CDS
Query:  3' 0    TCTTAAC----G-C----------------AAACCTGTTA------------------GT 0 5'
w/o GU          |||| ||    | |                ||||||||||                  || BLAST score 146
Target: 5' 5079 AGAAATGGATTCTGTTCAGATGGTTGAAGCTTTGGACAATGTGGATATATTTCCTGTCCA 5138/9061 3'
Query:  3' 0    TC--TTAA---CGCAAACCTGTTA-GT 0 5'
w/GU            ||  **||   || |||||||||| ** BLAST score 164.5
Target: 5' 5096 AGATGGTTGAAGC-TTTGGACAATGTG 5121/9061 3'

Hit # 10 by hsa-miR-208 in the CDS
Query:  3' 0    TGTTCGAAAAACGAGCAG--AATA 0 5'
w/o GU          ||||||||||  | | ||  |||| BLAST score 157
Target: 5' 5806 ACAAGCTTTT--CACTTCAGTTAT 5827/9061 3'
Query:  3' 0    TGTTCGAAAAACGAGCAGAATA 0 5'
w/GU            ||||||||||  ||*   |||| BLAST score 157.5
Target: 5' 5806 ACAAGCTTTTCACTTCAGTTAT 5827/9061 3'

Hit # 11 by hsa-miR-101 in the CDS
Query:  3' 0    GAAGTCAATAGTGTC-------ATGAC-AT 0 5'
w/o GU          |||||||||||||||       ||| | || BLAST score 187.5
Target: 5' 5818 CTTCAGTTATCACAGGATGGATTACAGTTA 5847/9061 3'
Query:  3' 0    GAAGTCAATAGTGTC-------ATGAC-AT 0 5'
w/GU            |||||||||||||||       ||| | || BLAST score 187.5
Target: 5' 5818 CTTCAGTTATCACAGGATGGATTACAGTTA 5847/9061 3'

Hit # 12 by hsa-miR-17-3p in the CDS
Query:  3' 0    TG-------------------TTC---ACGG--------AAGTGACGTC 1 5'
w/o GU          ||                   |||   ||||        |||||||||| BLAST score 151
Target: 5' 6108 ACTGGCAGTATGCTGGGGTGGAAGGGATGCCTATTATTTTTCACTGCAG 6156/9061 3'
Query:  3' 0    TGTT--C---ACGG--------AAGTGACGTC 1 5'
w/GU            ****  |   ||||        |||||||||| BLAST score 159.5
Target: 5' 6125 GTGGAAGGGATGCCTATTATTTTTCACTGCAG 6156/9061 3'

Hit # 13 by mmu-miR-155 in the CDS
Query:  3' 1    GGGATAGTGTTAATCGTA 3 5'
w/o GU          || | |  |||||||||| BLAST score 124
Target: 5' 7327 CCATTTT-CAATTAGCAT 7343/9061 3'
Query:  3' 0    GGGG-----------ATAGT----GTTAATCGTA------AT 1 5'
w/GU            |* |           |* ||    ||||||||||      |* BLAST score 150.5
Target: 5' 7310 CTGCAGACAGAGGAATGCCATTTTCAATTAGCATGCGACATG 7351/9061 3'

Hit # 14 by hsa-miR-199b in the CDS
Query:  3' 0    CTTG-------T----------CTATCAG---------------ATTTGTGACC-C 0 5'
w/o GU          || |       |          ||| |||               |||||||||| | BLAST score 156.5
Target: 5' 7413 GATCTTGGCTCATTTATCCCATGATCGTCGTCTCATTCAAGTGTTAAACACTGGAG 7468/9061 3'
Query:  3' 0    CT--TGTC----TA--T-CA-GATTTGTGACC-C 0 5'
w/GU            ||  ** |    ||  | || *|||||||||| | BLAST score 164
Target: 5' 7435 GATCGTCGTCTCATTCAAGTGTTAAACACTGGAG 7468/9061 3'

Hit # 15 by hsa-miR-188 in the CDS
Query:  3' 0    TGGGAGGT------GG-T-------------------------ACGTTCCCTAC 0 5'
w/o GU          |  |||||      || |                         ||||||||||| BLAST score 155
Target: 5' 7924 ATGCTCCAAAGTGACCGAACAGGATTGTCACGAAAGAGAAAACTGCAAGGGATG 7977/9061 3'
Query:  3' 0    TGGGAGGT------GGT--------------------------ACGTTCCCTAC 0 5'
w/GU            |* |||||      ||*                          ||||||||||| BLAST score 175.5
Target: 5' 7924 ATGCTCCAAAGTGACCGAACAGGATTGTCACGAAAGAGAAAACTGCAAGGGATG 7977/9061 3'

Hit # 16 by hsa-miR-30c in the 3'UTR
Query:  3' 0    CGACTCTCACATCCT-AC--AAATGT 0 5'
w/o GU          | || |||||||||| ||  | | || BLAST score 156.5
Target: 5' 8720 GTTG-GAGTGTAGGAATGAATATTCA 8744/9061 3'
Query:  3' 0    CG-ACT---CTCACATCCT-AC----AAATGT 0 5'
w/GU            |* ||*   |||||||||| ||    || |** BLAST score 181
Target: 5' 8715 GTATGGTTGGAGTGTAGGAATGAATATTCATG 8746/9061 3'

Hit # 17 by hsa-miR-181b in the 3'UTR
Query:  3' 2    GGGTGGC-T---GTC-GTTACTTACA-A 0 5'
w/o GU          ||  ||  |   ||  |||||||||| | BLAST score 135
Target: 5' 8767 CCTTCCCTAATTCATACAATGAATGTAT 8794/9061 3'
Query:  3' 0    T-TGGG---TGGC------------------TGTCGTTACTTACA-A 0 5'
w/GU            | ****   |**|                  |*| |||||||||| | BLAST score 178
Target: 5' 8749 ATGTTTCTTATTGCTTTTCCTTCCCTAATTCATA-CAATGAATGTAT 8794/9061 3'

Hit # 18 by mmu-miR-202 in the 3'UTR
Query:  3' 0    AGAAGGGTACG--C-------------------------------GATATGGAGA 0 5'
w/o GU          || | | |||   |                               |||||||||| BLAST score 137.5
Target: 5' 8778 TCATACAATGAATGTATTTGGAATACTTACATATTATAAAATAAACTATACCTCT 8832/9061 3'
Query:  3' 0    AGA----A-GGGT--ACGC----------GATATGGAGA 0 5'
w/GU            |*|    | |**|  | *           |||||||||| BLAST score 154.5
Target: 5' 8794 TTTGGAATACTTACATATTATAAAATAAACTATACCTCT 8832/9061 3'

Hit # 19 by hsa-miR-184 in the 3'UTR
Query:  3' 0    T--GGGAATAGTCA-----------AG--AGGC------------A--------GGT 0 5'
w/o GU          |  |||||||||||           ||  || |            |        ||| BLAST score 150
Target: 5' 8907 ACCCCCTTATCAGTCCCTTAGTGCCTCTTTCTGTTTGTGGCATGGTGAGAAAACCCA 8963/9061 3'
Query:  3' 0    T--GGGAATAGTCA-------------AGAGGCAGGT 0 5'
w/GU            |  |||||||||||             |*||*||*** BLAST score 196.5
Target: 5' 8907 ACCCCCTTATCAGTCCCTTAGTGCCTCTTTCTGTTTG 8943/9061 3'

Target # 22: >gi|37059776|ref|NM_175066.2| Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 51 (DDX51), mRNA
CDS: 13 2013
Hit # 1 by mmu-miR-150 in the CDS
Query:  3' 0    TGTGAC-C----ATGT---T--CCCAACCCTC-T 0 5'
w/o GU          || ||| |    |||    |  |||||||||| | BLAST score 153.5
Target: 5' 1766 AC-CTGAGAACCTACGTGCACCGGGTTGGGAGGA 1798/2802 3'
Query:  3' 0    TGTG-AC-C----ATGT-T----CCCAACCCTCT 0 5'
w/GU            **|| || |    |||* *    ||||||||||* BLAST score 184.5
Target: 5' 1764 GTACCTGAGAACCTACGTGCACCGGGTTGGGAGG 1797/2802 3'

Hit # 2 by hsa-miR-145 in the CDS
Query:  3' 2    CCCTA------AG---GACCCTTTTGACCTG 0 5'
w/o GU          ||||       ||   ||||||||||||||| BLAST score 187
Target: 5' 1792 GGGAGGACAGCTCGCGCTGGGAAAACTGGAC 1822/2802 3'
Query:  3' 0    TTC--------------CCTAA-------G--------GACCCTTTTGACCTG 0 5'
w/GU            *||              ||*||       |        ||||||||||||||| BLAST score 201.5
Target: 5' 1770 GAGAACCTACGTGCACCGGGTTGGGAGGACAGCTCGCGCTGGGAAAACTGGAC 1822/2802 3'

Hit # 3 by hsa-miR-212 in the 3'UTR
Query:  3' 0    CCG--------GCA---------------------CTGACCTCTGA---------CAAT 0 5'
w/o GU          |||        |||                     |||||||||||         || | BLAST score 154.5
Target: 5' 2160 GGCAGCCAGGGCGTCAGAGCTCAAGCACCTGCCCCGACTGGAGACTTCAGGGCTTGTCA 2218/2802 3'
Query:  3' 0    CCG--------GCA---------------------CTGACCTCTGA-----C-AAT 0 5'
w/GU            |||        |||                     |||||||||||     | ||* BLAST score 160.5
Target: 5' 2160 GGCAGCCAGGGCGTCAGAGCTCAAGCACCTGCCCCGACTGGAGACTTCAGGGCTTG 2215/2802 3'

Hit # 4 by hsa-miR-216 in the 3'UTR
Query:  3' 1    TG-----TC-------AACGG---TCGACTCTAA 1 5'
w/o GU          ||     ||       ||||    |||||||||| BLAST score 146
Target: 5' 2569 ACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATT 2602/2802 3'
Query:  3' 1    TGTC---AACG--G-TCGACTCTAAT 0 5'
w/GU            ***|   ||||  * ||||||||||* BLAST score 173
Target: 5' 2578 GTGGAGGTTGCAGTGAGCTGAGATTG 2603/2802 3'

Target # 23: >gi|11038661|ref|NM_000491.2| Homo sapiens complement component 1, q subcomponent, beta polypeptide (C1QB), mRNA
CDS: 64 825
Hit # 1 by hsa-miR-23b in the CDS
Query:  3' 0   CACCA----T---TAGGGACCGT--------T----ACACT 1 5'
w/o GU         | ||     |   ||||||||||        |    || || BLAST score 135
Target: 5' 160 G-GGCCCCCAGCCATCCCTGGCATCCCGGGTATCCCTGGGA 199/1072 3'
Query:  3' 0   C-AC----CAT---------TAGGGACCGT----TACACTA 0 5'
w/GU           | ||    | *         ||||||||||    * || || BLAST score 145.5
Target: 5' 152 GCTGCACCGGGCCCCCAGCCATCCCTGGCATCCCGGGT-AT 191/1072 3'

Hit # 2 by hsa-miR-145 in the CDS
Query:  3' 0   T---TCCCTAAGGACCCTT--------TTGA-CCTG 0 5'
w/o GU         |   |||||||||||||||        || | || | BLAST score 185
Target: 5' 299 ACCCAGGGATTCCTGGGAATCCAGGAAAAGTCGGCC 334/1072 3'
Query:  3' 0   T---TCCCTAAGGACCCTT--------TTGACCTG 0 5'
w/GU           |   |||||||||||||||        || | |*| BLAST score 193.5
Target: 5' 299 ACCCAGGGATTCCTGGGAATCCAGGAAAAGTCGGC 333/1072 3'

Hit # 3 by hsa-miR-197 in the CDS
Query:  3' 0   CGACCCAC-C-----TCTTCCACCA----------CT--T 0 5'
w/o GU         || ||| | |     ||||||||||          ||  | BLAST score 154
Target: 5' 623 GCCGGGAGCGTGCACAGAAGGTGGTCACCTTCTGTGACTA 662/1072 3'
Query:  3' 0   CG--------ACCCACC--------------TCTTCCACCA--------C-TT 0 5'
w/GU           |*        || ||||              ||||||||||        | *| BLAST score 160
Target: 5' 607 GTGAACCTCATGCGTGGCCGGGAGCGTGCACAGAAGGTGGTCACCTTCTGTGA 659/1072 3'

Hit # 4 by hsa-miR-153 in the CDS
Query:  3' 0   AGTGAAA-ACACTGATACG----TT 0 5'
w/o GU         |||| || |||||||||||    || BLAST score 169
Target: 5' 647 TCACCTTCTGTGACTATGCCTACAA 671/1072 3'
Query:  3' 0   AGTGAAA-ACACTGATACG----TT 0 5'
w/GU           |||| || |||||||||||    || BLAST score 169
Target: 5' 647 TCACCTTCTGTGACTATGCCTACAA 671/1072 3'

Target # 24: >gi|37544698|ref|XM_028522.3| Homo sapiens myosin heavy chain Myr 8 (MYR8), mRNA
CDS: 1 5622
Hit # 1 by hsa-miR-214 in the CDS
Query:  3' 0   GA----CGG--AC----A---GACACGGACG--------------ACA 0 5'
w/o GU         ||    |||  ||    |   ||||||||||              ||| BLAST score 156.5
Target: 5' 423 CTGGACGCCCATGCACATTGCCTGTGCCTGCGATAACCCTGATATTGT 470/6783 3'
Query:  3' 0   G-ACG---GACAGACACGGACG--------------ACA 0 5'
w/GU           | |||   *|| ||||||||||              ||| BLAST score 164.5
Target: 5' 432 CATGCACATTGCCTGTGCCTGCGATAACCCTGATATTGT 470/6783 3'

Hit # 2 by hsa-miR-217 in the CDS
Query:  3' 0   TA--GGT-T----AGTC-A--------AGGACTACGT--------------------------CAT 0 5'
w/o GU         ||  ||| |    || | |        ||||||||||                          ||| BLAST score 158.5
Target: 5' 839 ATGGCCAGACAAATCTGGTGAAACTTCTCCTGATGCATCAGGCAAACCCACACCTCGTGAACTGTA 904/6783 3'
Query:  3' 0   TA--GGTT-----AG-TCA--------AGGACTACGT-------------------CAT 0 5'
w/GU           ||  |||*     || *||        ||||||||||                   ||* BLAST score 182.5
Target: 5' 839 ATGGCCAGACAAATCTGGTGAAACTTCTCCTGATGCATCAGGCAAACCCACACCTCGTG 897/6783 3'

Hit # 3 by hsa-miR-149 in the CDS
Query:  3' 0    C-CTCACTTCTGT---------GCCTCGGTCT 0 5'
w/o GU          | ||| ||| |||         |||||||||| BLAST score 162
Target: 5' 1732 GAGAG-GAA-ACAACAGCTAACCGGAGCCAGA 1761/6783 3'
Query:  3' 0    C-CTCACTTCTGT---------GCCTCGGTCT 0 5'
w/GU            | ||| |*| |||         |||||||||| BLAST score 174
Target: 5' 1730 GTGAGAGGAAACAACAGCTAACCGGAGCCAGA 1761/6783 3'

Hit # 4 by hsa-miR-32 in the CDS
Query:  3' 0    CGTTGAATCATT--ACACGTTAT 0 5'
w/o GU          | ||||||||||  | |  || | BLAST score 132.5
Target: 5' 3016 G-AACTTAGTAAGTTATTAAAAA 3037/6783 3'
Query:  3' 0    CGTTGAATCATTACACGTTAT 0 5'
w/GU            | |||||||||| || *| || BLAST score 142
Target: 5' 3016 G-AACTTAGTAA-GT-TATTA 3033/6783 3'

Hit # 5 by mmu-miR-147 in the CDS
Query:  3' 0    C--CGT---CTT----------------------CGTAAAGGTG---T----GT---G 0 5'
w/o GU          |  |||   |||                      ||||||||||   |    ||   | BLAST score 143.5
Target: 5' 3752 GAAGCAAAAGAACCGATGACAAGAGTGGACCCAGGCATTTCCACCCCAGCTCCATGTC 3809/6783 3'
Query:  3' 0    C-CGTC----TTCGTAAAGGTG---------TGTG 0 5'
w/GU            | |**|    |*||||||||||         |*** BLAST score 179
Target: 5' 3774 GAGTGGACCCAGGCATTTCCACCCCAGCTCCATGT 3808/6783 3'

Hit # 6 by mmu-miR-129b in the CDS
Query:  3' 0    TTG-TT-----------CGGGTCTGGCGT----------------------TT-TTC 0 5'
w/o GU          ||| ||           ||||||||||||                      || ||| BLAST score 170.5
Target: 5' 4024 AACGAAGCTCTGGCCCGGCCCAGACCGCACAGCGACGACTACAGCACCATGAAGAAG 4080/6783 3'
Query:  3' 0    TTGTT------------CGGGTCTGGCGT-----------------------TTTTC 0 5'
w/GU            |||*|            ||||||||||||                       |*||| BLAST score 186.5
Target: 5' 4024 AACGAAGCTCTGGCCCGGCCCAGACCGCACAGCGACGACTACAGCACCATGAAGAAG 4080/6783 3'

Hit # 7 by hsa-miR-127 in the CDS
Query:  3' 0    TC--------GGTTCGAGTCTGCCTAGG---CT 0 5'
w/o GU          ||        |||||||||| ||| |||   || BLAST score 167.5
Target: 5' 4105 AGCCCCAACACCAAGCTCAG-CGGCTCCTACGA 4136/6783 3'
Query:  3' 0    TC--------GGTTCGAGTC--------TG---C-CTA-GGCT 0 5'
w/GU            ||        ||||||||||        ||   | ||| *||* BLAST score 169.5
Target: 5' 4105 AGCCCCAACACCAAGCTCAGCGGCTCCTACGAGGAGATATCGG 4147/6783 3'

Hit # 8 by mmu-miR-146 in the CDS
Query:  3' 0    TTT--G------GGTACCTTAAGTCAA--G----AGT 0 5'
w/o GU          |||  |      |||||||||||||||  |    ||| BLAST score 191
Target: 5' 5220 AAATGCAAATAACCATGGAATTCAGTTATCTAATTCA 5256/6783 3'
Query:  3' 0    TTTG--GGTACCTTAAGTCAA------GAGT 0 5'
w/GU            |||*  |||||||||||||||      *||| BLAST score 210
Target: 5' 5226 AAATAACCATGGAATTCAGTTATCTAATTCA 5256/6783 3'

Hit # 9 by hsa-miR-101 in the CDS
Query:  3' 1    AAGTCAATAG---------T-G-TCATGACAT 0 5'
w/o GU          ||||||||||         | | ||| || || BLAST score 155.5
Target: 5' 5240 TTCAGTTATCTAATTCACTATCTAGTGCTATA 5271/6783 3'
Query:  3' 1    AAGTCAATAG---------T--GTCATGACAT 0 5'
w/GU            ||||||||||         |  *|||*|| || BLAST score 176
Target: 5' 5240 TTCAGTTATCTAATTCACTATCTAGTGCTATA 5271/6783 3'

Hit # 10 by hsa-miR-126 in the CDS
Query:  3' 0    CGTAAT--A------------ATGAGTGCCA--------------TG---CT 0 5'
w/o GU          |  |||  |            ||||||||||              ||   || BLAST score 137.5
Target: 5' 5302 GGTTTACCTGAAGAAGATGGATACTCACGGTTGTCTATAAGTGGCACAGGGA 5353/6783 3'
Query:  3' 0    CGTAAT--A------------ATGAGTGCCA---------TGCT 0 5'
w/GU            |* |||  |            ||||||||||         **|* BLAST score 156
Target: 5' 5303 GT-TTACCTGAAGAAGATGGATACTCACGGTTGTCTATAAGTGG 5345/6783 3'

Hit # 11 by mmu-miR-187 in the 3'UTR
Query:  3' 0    GG-CCGACGTTGT-G--TT-----------CTGT--GC 1 5'
w/o GU          || |||||||||| |  ||           ||||  || BLAST score 161.5
Target: 5' 5668 CCGGGCTGCAACAACAGAAGGCTGCCTTCTGACATGCG 5705/6783 3'
Query:  3' 0    GG-CCGACGTTGT-G--TTCT-GT-----GCT 0 5'
w/GU            || |||||||||| |  |||* **     *|| BLAST score 175
Target: 5' 5668 CCGGGCTGCAACAACAGAAGGCTGCCTTCTGA 5699/6783 3'

Target # 25: >gi|4502270|ref|NM_000702.1| Homo sapiens ATPase, Na+/K+ transporting, alpha 2 (+) polypeptide (ATP1A2), mRNA
CDS: 105 3167
Hit # 1 by mmu-miR-132 in the CDS
Query:  3' 1   G-CTG------------------GTACCGACAT-----C---TGA----CAAT 0 5'
w/o GU         | |||                  ||||||||||     |   |||     ||| BLAST score 152
Target: 5' 700 CTGACCTCCGGATCATCTCTTCTCATGGCTGTAAGGTGGATAACTCATCCTTA 752/5511 3'
Query:  3' 0   TGCTG-------GTACCGACAT-CTGACAAT 0 5'
w/GU           |* |*       |||||||||| |** | || BLAST score 172.5
Target: 5' 711 ATCATCTCTTCTCATGGCTGTAAGGTGGATA 741/5511 3'

Hit # 2 by hsa-miR-223 in the CDS
Query:  3' 0    CCCCA-T--AAACTGTTTG-----------A-CTG 1 5'
w/o GU          ||||  |  ||||||||||           | ||| BLAST score 148
Target: 5' 1320 GGGGCCACTTTTGACAAACGATCCCCTACGTGGAC 1354/5511 3'
Query:  3' 0    CCCCA-T--AAACTGTTTG-----------A-CTGT 0 5'
w/GU            ||||  |  ||||||||||           | |||* BLAST score 158
Target: 5' 1320 GGGGCCACTTTTGACAAACGATCCCCTACGTGGACG 1355/5511 3'

Hit # 3 by mmu-miR-155 in the CDS
Query:  3' 0    G-GGGATAGTGT---------TAA-----T-------CGTA--AT--T 0 5'
w/o GU          | ||||||||||         |||     |       ||||  ||  | BLAST score 159
Target: 5' 1953 CACCCTATCACAGCCAAGGCCATTGCCAAAGGCGTGGGCATCATATCA 2000/5511 3'
Query:  3' 0    G-GGGATAGTGT---------TAA------TCGTAATT 0 5'
w/GU            | ||||||||||         |||      *||*| ** BLAST score 175.5
Target: 5' 1953 CACCCTATCACAGCCAAGGCCATTGCCAAAGGCGTGGG 1990/5511 3'

Hit # 4 by hsa-miR-182 in the CDS
Query:  3' 1    CACT----C-A---------AG----AT------------GGTAACGGTTT 0 5'
w/o GU          ||||    | |         ||    ||            ||||||||||| BLAST score 155
Target: 5' 1932 GTGATCATGGTAACCGGGGATCACCCTATCACAGCCAAGGCCATTGCCAAA 1982/5511 3'
Query:  3' 1    CAC-----TCA---------AG----AT------------GGTAACGGTTT 0 5'
w/GU            |||     *||         ||    ||            ||||||||||| BLAST score 163
Target: 5' 1932 GTGATCATGGTAACCGGGGATCACCCTATCACAGCCAAGGCCATTGCCAAA 1982/5511 3'

Hit # 5 by hsa-miR-30c in the CDS
Query:  3' 0    CGACTCTCAC-ATCCTACAAATGT 0 5'
w/o GU          |||||||||| ||  |||   | | BLAST score 138.5
Target: 5' 2574 GCTGAGAGTGATATCATG---A-A 2593/5511 3'
Query:  3' 0    CGACTCTCAC-ATCCTACAAATGT 0 5'
w/GU            |||||||||| ||  |||   *|* BLAST score 153
Target: 5' 2574 GCTGAGAGTGATATCATG-AAGCG 2596/5511 3'

Hit # 6 by hsa-miR-197 in the CDS
Query:  3' 0    CG--ACC---C---ACCT-------------CTTCCACCACTT 0 5'
w/o GU          ||  |||   |   ||||             |||||||||| | BLAST score 165
Target: 5' 2797 GCTATGGACAGGAGTGGACCTATGAGCAGCGGAAGGTGGTGGA 2839/5511 3'
Query:  3' 0    CG--ACC---C---ACCT-------------CTTCCACCACTT 0 5'
w/GU            ||  |||   |   ||||             ||||||||||*| BLAST score 177.5
Target: 5' 2797 GCTATGGACAGGAGTGGACCTATGAGCAGCGGAAGGTGGTGGA 2839/5511 3'

Hit # 7 by hsa-miR-31 in the CDS
Query:  3' 0    GT-C-----GATACGGTCGTAG----A--ACG 1 5'
w/o GU          || |     || ||||||||||    |  ||| BLAST score 149.5
Target: 5' 2852 CACGGCATTCTTTGCCAGCATCGTGGTGGTGC 2883/5511 3'
Query:  3' 0    GTCGAT-----ACGGTCGTAGAACGG 0 5'
w/GU            |*|| |     |||||||||| || * BLAST score 156
Target: 5' 2854 CGGC-ATTCTTTGCCAGCATCGTGGT 2878/5511 3'

Hit # 8 by hsa-miR-185 in the CDS
Query:  3' 0    CT-T---------GACGGAAAGAGAG--------GT 0 5'
w/o GU          || |         |||||||||||||        || BLAST score 147
Target: 5' 2976 GAGACGGCGTTGGCTGCCTTTCTCTCTTACTGCCCA 3011/5511 3'
Query:  3' 0    C--TTGACGGAAAGAGAG-GT 0 5'
w/GU            |  **||||||||||||| *| BLAST score 162.5
Target: 5' 2984 GTTGGCTGCCTTTCTCTCTTA 3004/5511 3'

Hit # 9 by hsa-miR-197 in the CDS/3'UTR
Query:  3' 0    CGACCCACCTCTTCC--------------------ACC-ACTT 0 5'
w/o GU          |||||||||||||||                    |||  ||| BLAST score 181
Target: 5' 3139 GCTGGGTGGAGAAGGAGACATACTACTGACCCCATTGGAAGAA 3181/5511 3'
Query:  3' 0    CGACCCACCTCTTCC-----------AC------CACTT 0 5'
w/GU            |||||||||||||||           ||       ||*| BLAST score 183
Target: 5' 3139 GCTGGGTGGAGAAGGAGACATACTACTGACCCCATTGGA 3177/5511 3'

Hit # 10 by hsa-miR-34 in the 3'UTR
Query:  3' 0    T-G------TTGGTCG-ATT------CTGTGACGGT 0 5'
w/o GU          | |      |||| || | |      |||||||||| BLAST score 156
Target: 5' 4166 ATCCCGATGAACCTGCATCATTCCCCGACACTGCCA 4201/5511 3'
Query:  3' 0    TGTTGGTCG----ATT----------------CTGTGACGGT 0 5'
w/GU            |** ||| |    |*|                |||||||||| BLAST score 169
Target: 5' 4160 ATGCCCATCCCGATGAACCTGCATCATTCCCCGACACTGCCA 4201/5511 3'

Hit # 11 by hsa-miR-197 in the 3'UTR
Query:  3' 0    CGA-------CCCACCTCTTCCA-CCACTT 0 5'
w/o GU          |||       ||||||||||| |   |||| BLAST score 162.5
Target: 5' 4236 GCTAGAATCAGGGTGGAGAAGTTCCCTGAA 4265/5511 3'
Query:  3' 0    CGA-------CCCACCTCTTCCA-CCACTT 0 5'
w/GU            |||       ||||||||||| |   |||| BLAST score 162.5
Target: 5' 4236 GCTAGAATCAGGGTGGAGAAGTTCCCTGAA 4265/5511 3'

Hit # 12 by hsa-miR-130a in the 3'UTR
Query:  3' 1    GG-----GA----AAATTGTAACGTGAC 0 5'
w/o GU          ||     ||    |||  |||||||||| BLAST score 140.5
Target: 5' 5003 CCAAAGGCTGTCATTT--CATTGCACTG 5028/5511 3'
Query:  3' 0    CGGGA--AAATTGTAACGTGAC 0 5'
w/GU            ||* |  |||  |||||||||| BLAST score 149.5
Target: 5' 5009 GCTGTCATTT--CATTGCACTG 5028/5511 3'

Target # 26: >gi|30149809|ref|XM_291579.2| Homo sapiens LOC343460 (LOC343460), mRNA
CDS: 147 2924
Hit # 1 by mmu-miR-26b in the CDS
Query:  3' 0    TTG------------GATAGGACTTAATGAA---CTT 0 5'
w/o GU          |||            ||||||||||  | ||   ||| BLAST score 159
Target: 5' 1099 AACAAAAGACAGAGACTATCCTGAAGGATTTGCAGAA 1135/2924 3'
Query:  3' 0    TTG-----GATAGGACTT----AA--------TGAA----CTT 0 5'
w/GU            *||     ||||||||||    ||        |*||    |*| BLAST score 177.5
Target: 5' 1106 GACAGAGACTATCCTGAAGGATTTGCAGAAGCATTTCCATGGA 1148/2924 3'

Hit # 2 by mmu-miR-147 in the CDS
Query:  3' 1    CGTCTTCGTAAAGGT-----GT--------GT-G 0 5'
w/o GU          |||||||||||||||     ||        || | BLAST score 169
Target: 5' 1130 GCAGAAGCATTTCCATGGAGCATGGCTTGCCAGC 1163/2924 3'
Query:  3' 1    CGTCTTCGTAAAGGTG---TGTG 0 5'
w/GU            |||||||||||||||*   *||* BLAST score 190.5
Target: 5' 1130 GCAGAAGCATTTCCATGGAGCAT 1152/2924 3'

Hit # 3 by hsa-miR-138 in the CDS
Query:  3' 0    CTA--A------GT-------------GTTGTGGTCG 1 5'
w/o GU          |||  |      ||             |||||||||| BLAST score 125.5
Target: 5' 1223 GATCATGGTGAGCATGGAGGCCATGACCAACACCAGC 1259/2924 3'
Query:  3' 0    CTA----AGT----------------------GTTGTGGTCG 1 5'
w/GU            |||    |||                      |||||||||| BLAST score 131
Target: 5' 1218 GATATGATCATGGTGAGCATGGAGGCCATGACCAACACCAGC 1259/2924 3'

Hit # 4 by hsa-miR-186 in the CDS
Query:  3' 0    T-TCGGGTTTTC------CTCTT--AAGAAA 1 5'
w/o GU          | ||||||||||       ||||  | || | BLAST score 154
Target: 5' 1386 ACAGCCCAAAAGACCATTAAGAAGATCCTGT 1416/2924 3'
Query:  3' 0    T-TCGGGTTTTC--------CTCTTAAGAAA 1 5'
w/GU            | ||||||||||        || *|| || | BLAST score 162
Target: 5' 1386 ACAGCCCAAAAGACCATTAAGAAGATCCTGT 1416/2924 3'

Hit # 5 by hsa-miR-133a in the CDS
Query:  3' 1    GTC--G----------ACCAACTTCCCCTG-------GTT 0 5'
w/o GU          |||  |          ||||||||||||||       ||| BLAST score 176.5
Target: 5' 1752 CAGATCTCCTTTTTGGTGGTTGAAGGGGACGCTGAAACAA 1791/2924 3'
Query:  3' 0    TGTCG--------------------------ACCAACTTCCCCTG--GTT 0 5'
w/GU            |**||                          ||||||||||||||  **| BLAST score 190
Target: 5' 1737 ATGGCCCTGCTGTTCCAGATCTCCTTTTTGGTGGTTGAAGGGGACGCTGA 1786/2924 3'

Hit # 6 by hsa-miR-182 in the CDS
Query:  3' 0    AC--AC---------TCAAGATGGTA-----------------AC--GGTTT 0 5'
w/o GU          ||  ||         |||||||||||                 ||   |||| BLAST score 160.5
Target: 5' 1818 TGGATGGACCCCATAAGTTCTACCATGGAGGCCCTGAAGACCTTGATTCAAA 1869/2924 3'
Query:  3' 0    AC--AC---------TCAAGATGGTA-----------------AC--GGTTT 0 5'
w/GU            ||  ||         |||||||||||                 ||  *|||| BLAST score 173
Target: 5' 1818 TGGATGGACCCCATAAGTTCTACCATGGAGGCCCTGAAGACCTTGATTCAAA 1869/2924 3'

Hit # 7 by hsa-miR-148 in the CDS
Query:  3' 0    T--GTTTCAAGAC--AT-CACGTGAC 1 5'
w/o GU          |  ||||||||||  || | | |||| BLAST score 158.5
Target: 5' 1863 ATTCAAAGTTCTGGATATGGGGACTG 1888/2924 3'
Query:  3' 0    T--GTTTCAAGAC-----------AT-CAC-----GTGA--CT 0 5'
w/GU            |  ||||||||||           |* |||     *|*|  || BLAST score 169.5
Target: 5' 1863 ATTCAAAGTTCTGGATATGGGGACTGTGTGTCTTCTATTCAGA 1905/2924 3'

Hit # 8 by hsa-miR-136 in the CDS
Query:  3' 0    AGGTAGTAGT---------------------------TT--TG-TTTACC----TCA 0 5'
w/o GU          ||||||||||                           ||  ||  || ||     || BLAST score 143.5
Target: 5' 2019 TCCATCATCAGGTTCCTCCAGGACCCAGACCTGCAAGAATCACTTAACGGCCCTTGT 2075/2924 3'
Query:  3' 0    AGGTAGTAGT----------TTT--GTTT--AC---CTCA 0 5'
w/GU            ||||||||||          **|  ||*|  ||   || | BLAST score 177
Target: 5' 2019 TCCATCATCAGGTTCCTCCAGGACCCAGACCTGCAAGAAT 2058/2924 3'

Hit # 9 by hsa-miR-24 in the CDS
Query:  3' 0    GACAAGG------------------ACGACTTGAC----------------TCG--GT 0 5'
w/o GU          | | |||                  ||||||||||                |||  || BLAST score 153
Target: 5' 2286 CGGCTCCGAATCCTCCAGCCCTATGTGCTGAACTGCTGCTACTCCTCGAACAGCGACA 2343/2924 3'
Query:  3' 0    GACA--------AGG------------------ACGACTTGAC-TCGGT 0 5'
w/GU            * ||        |||                  ||||||||||  ||*| BLAST score 157.5
Target: 5' 2278 TGGTGAGGCGGCTCCGAATCCTCCAGCCCTATGTGCTGAACTGCTGCTA 2326/2924 3'

Hit # 10 by hsa-miR-212 in the CDS
Query:  3' 0    CCG--GCACTGACCTCTGACAA 1 5'
w/o GU          | |  ||| |||||||||| || BLAST score 141.5
Target: 5' 2340 GACATCGT-ACTGGAGACT-TT 2359/2924 3'
Query:  3' 0    C-C---GGCACTGACCTCTGACAAT 0 5'
w/GU            | |   *||| |||||||||| ||* BLAST score 155
Target: 5' 2338 GCGACATCGT-ACTGGAGACT-TTG 2360/2924 3'

Target # 27: >gi|14141182|ref|NM_003483.3| Homo sapiens high mobility group AT-hook 2 (HMGA2), mRNA
CDS: 860 1189
Hit # 1 by hsa-miR-34 in the 3'UTR
Query:  3' 0    T---GTTG--GTC------GA-----------TTCTGTGACG------GT 0 5'
w/o GU          |   || |  |||      ||           ||||||||||      || BLAST score 153.5
Target: 5' 1211 ACCTCAGCAGCAGTTGGATCTTTTGAAGGGAGAAGACACTGCAGTGACCA 1260/4111 3'
Query:  3' 0    TGTTGGTCGA-------------TTCTGTGACG--GT 0 5'
w/GU            *||****| |             ||||||||||  ** BLAST score 184
Target: 5' 1220 GCAGTTGGATCTTTTGAAGGGAGAAGACACTGCAGTG 1256/4111 3'

Hit # 2 by hsa-miR-33 in the 3'UTR
Query:  3' 0    GTTACGTTGA-TGTTACGTG 0 5'
w/o GU          ||||||||||   |||  || BLAST score 125.5
Target: 5' 1450 CAATGCAACTTTTAAT-TAC 1468/4111 3'
Query:  3' 0    GTTACGTTGA----------------------------------TGTTACGTG 0 5'
w/GU            ||||||||||                                  |*|*| *** BLAST score 152.5
Target: 5' 1450 CAATGCAACTTTTAATTACTGTTTTCTTTTTTCTTAACCTACTAATAGTTTGT 1502/4111 3'

Hit # 3 by hsa-miR-21 in the 3'UTR
Query:  3' 0    AG--TTGTA-G-T---C--------AGACTATTCGAT 0 5'
w/o GU          ||  ||| | | |   |        |||||||||| | BLAST score 147.5
Target: 5' 1481 TCTTAACCTACTAATAGTTTGTTGATCTGATAAGCAA 1517/4111 3'
Query:  3' 0    A--GTTG--TAGTCAGACTATTCG-----AT 0 5'
w/GU            |  *|**  *|** ||||||||||     |* BLAST score 179
Target: 5' 1492 TAATAGTTTGTTGATCTGATAAGCAAGAGTG 1522/4111 3'

Hit # 4 by hsa-miR-185 in the 3'UTR
Query:  3' 1    TTG---------------------ACGGAAAGAGAGG-T 0 5'
w/o GU          |||                     ||||||||||||| | BLAST score 143
Target: 5' 3216 AACGCTTCTTATGTAGAGTTTTTATGCCTTTCTCTCCTA 3254/4111 3'
Query:  3' 0    CTTG-----ACGGAAAGAGAGG-T 0 5'
w/GU            ||**     ||||||||||||| | BLAST score 161
Target: 5' 3231 GAGTTTTTATGCCTTTCTCTCCTA 3254/4111 3'

Hit # 5 by hsa-miR-213 in the 3'UTR
Query:  3' 0    C--CATGTTAGTT----GCCA-GCT-----A--C-----CA 0 5'
w/o GU          |  ||||||||||    |  | | |     |  |     || BLAST score 125
Target: 5' 3683 GTTGTACAATCAAAACACACTACTACCTCTTAAGTCCCAGT 3723/4111 3'
Query:  3' 0    C--CATGTTAGTT------------------------GCCA-----GCTACCA 0 5'
w/GU            |  ||||||||||                        | ||     * ||  | BLAST score 130.5
Target: 5' 3683 GTTGTACAATCAAAACACACTACTACCTCTTAAGTCCCAGTATACCTCATTTT 3735/4111 3'

Hit # 6 by mmu-let-7h in the 3'UTR
Query:  3' 2    GACA----------------TGTGTGATGATGGAG--T 0 5'
w/o GU          ||||                |||||||||||||||  | BLAST score 175
Target: 5' 3677 CTGTATGTTGTACAATCAAAACACACTACTACCTCTTA 3714/4111 3'
Query:  3' 0    T-TGACA---------TGTGTGATGATGGAG--T 0 5'
w/GU            | **|||         |||||||||||||||  | BLAST score 190
Target: 5' 3681 ATGTTGTACAATCAAAACACACTACTACCTCTTA 3714/4111 3'

Hit # 7 by hsa-miR-182 in the 3'UTR
Query:  3' 0    ACA-C-----TC-------------------------AAGATGGTAACG--GTT---T 0 5'
w/o GU          ||| |     ||                         |||||||||| |  |||   | BLAST score 149.5
Target: 5' 3849 TGTTGGTCGCAGCTACATAAGACTGGACATTTAACTTTTCTACCATTTCTGCAAGTTA 3906/4111 3'
Query:  3' 0    ACACTC-------------------------------AAGATGGTAA-------CGGTTT 0 5'
w/GU            ||| *|                               ||||||||||       |**|** BLAST score 172.5
Target: 5' 3849 TGTTGGTCGCAGCTACATAAGACTGGACATTTAACTTTTCTACCATTTCTGCAAGTTAGG 3908/4111 3'

Target # 28: >gi|27501309|ref|XM_208416.1| Homo sapiens similar to Voltage-dependent anion-selective channel protein 1 (VDAC-1) (hVDAC1) (Outer mitochondrial membrane protein porin 1) (Plasmalemmal porin) (Porin 31HL) (Porin 31HM) (LOC286409), mRNA
CDS: 512 901
Hit # 1 by hsa-miR-223 in the CDS
Query:  3' 0   CC----------------------CCATAAACTGTTTGACTGT 0 5'
w/o GU         ||                      |||||    |||||||||| BLAST score 141
Target: 5' 785 GGATACACTCAGACTCTAAAGCCAGGTAT----CAAACTGACA 823/1765 3'
Query:  3' 0   CC----------------------CCATAAACTGTTTGACTGT 0 5'
w/GU           ||                      |||||    |||||||||| BLAST score 141
Target: 5' 785 GGATACACTCAGACTCTAAAGCCAGGTAT----CAAACTGACA 823/1765 3'

Hit # 2 by mmu-miR-106b in the CDS
Query:  3' 0   TAG----AC-GTGACAGTCGTGAA-A 0 5'
w/o GU         |||    || |||||||||| ||| | BLAST score 160.5
Target: 5' 812 ATCAAACTGACACTGTCAGCTCTTCT 837/1765 3'
Query:  3' 0   TAG----AC-GTGACAGTCGTGAA-A 0 5'
w/GU           |||    || |||||||||| ||| | BLAST score 160.5
Target: 5' 812 ATCAAACTGACACTGTCAGCTCTTCT 837/1765 3'

Hit # 3 by hsa-miR-125a in the 3'UTR
Query:  3' 0    GTGTCCAATTTC--CCAGAGTC-----CCT 0 5'
w/o GU          | ||||||||||  | | ||||      || BLAST score 148.5
Target: 5' 1021 C-CAGGTTAAAGTTGAT-TCAGCTTTAAGA 1048/1765 3'
Query:  3' 0    GT------GTCCAATTTC---------------C--CAG-----A-GTCCCT 0 5'
w/GU            *|      ||||||||||               |  ||*     | |*| |* BLAST score 163
Target: 5' 1014 TAGCCCTCCAGGTTAAAGTTGATTCAGCTTTAAGATGTTACCCTTCCGGAGG 1065/1765 3'

Hit # 4 by hsa-miR-197 in the 3'UTR
Query:  3' 0    CG--A----CCCACCTCTTCCACC------ACTT 0 5'
w/o GU          ||  |    |||||||||||||||      |||| BLAST score 190
Target: 5' 1423 GCCATTTTGGGGTGGAGAAGGTGGATGTGATGAA 1456/1765 3'
Query:  3' 0    CGA-----------------CCCACCTCTTCCACC------ACTT 0 5'
w/GU            |*|                 |||||||||||||||      |||| BLAST score 192.5
Target: 5' 1412 GTTTCTTTTGTGCCATTTTGGGGTGGAGAAGGTGGATGTGATGAA 1456/1765 3'

Target # 29: >gi|21361271|ref|NM_005934.2| Homo sapiens myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 1 (MLLT1), mRNA
CDS: 165 1844
Hit # 1 by hsa-miR-219 in the 5'UTR/CDS
Query:  3' 6   CGCAA-----ACCTGTTAGT 0 5'
w/o GU         |||       |||||||||| BLAST score 114.5
Target: 5' 156 GCGCCAGCCATGGACAATCA 175/1974 3'
Query:  3' 0   TCT-TAACGCAA-----ACCTGTTAGT 0 5'
w/GU           *|* *  |||       |||||||||| BLAST score 141
Target: 5' 149 GGGCGGGGCGCCAGCCATGGACAATCA 175/1974 3'

Hit # 2 by hsa-miR-197 in the CDS
Query:  3' 0   CG--AC-C--------------CACCTCTTCCACCA-------------CT-T 0 5'
w/o GU         ||  || |              ||||||||||||||             || | BLAST score 164.5
Target: 5' 284 GCAATGTGACATCCAGCACTTCGTGGAGAAGGTGGTCTTCTGGCTGCACGACA 336/1974 3'
Query:  3' 0   CG--AC-C--------------CACCTCTTCCACCA-----CT--T 0 5'
w/GU           ||  || |              ||||||||||||||     |*  * BLAST score 168
Target: 5' 284 GCAATGTGACATCCAGCACTTCGTGGAGAAGGTGGTCTTCTGGCTG 329/1974 3'

Hit # 3 by mmu-miR-129b in the CDS
Query:  3' 2   GTTCGGGTCTG-G----CGTT-------------TTTC 0 5'
w/o GU         ||||||||||| |    ||||             |||| BLAST score 167
Target: 5' 344 CAAGCCCAGACGCGTGTGCAAGGAGCCCCCCTACAAAG 381/1974 3'
Query:  3' 0   TT------GTTCGGGTCTG-----GCGTTTTTC 0 5'
w/GU           |*      |||||||||||     *||||**|| BLAST score 198.5
Target: 5' 336 AGCTTCCCCAAGCCCAGACGCGTGTGCAAGGAG 368/1974 3'

Hit # 4 by hsa-miR-197 in the CDS
Query:  3' 0    CGAC-----C-CACCTCTTCCAC----------CACT 1 5'
w/o GU          || |     | | ||||||||||          |||| BLAST score 153
Target: 5' 1165 GCAGCACCAGAGGGGAGAAGGTGAAGGCCGAGAGTGA 1201/1974 3'
Query:  3' 0    CGAC-----C-CACCTCTTCCAC----------CACTT 0 5'
w/GU            || |     | | ||||||||||          ||||* BLAST score 163
Target: 5' 1165 GCAGCACCAGAGGGGAGAAGGTGAAGGCCGAGAGTGAG 1202/1974 3'

Target # 30: >gi|27500436|ref|XM_211329.1| Homo sapiens hypothetical protein LOC284107 (LOC284107), mRNA
CDS: 1850 2215
Hit # 1 by hsa-miR-213 in the 5'UTR
Query:  3' 0   CCATGTTAGT---------TG-C-CAGCT-----AC-------CA 0 5'
w/o GU         ||||||||||         || |   |||     ||       || BLAST score 143.5
Target: 5' 431 GGTACAATCACAGTTCACTACAGCCCCGACCTCCTGAACTCAAGT 475/2305 3'
Query:  3' 0   CCATGTTAGT---------TG-C-CAGCT-----AC-------CA 0 5'
w/GU           ||||||||||         || |   |||     ||       || BLAST score 143.5
Target: 5' 431 GGTACAATCACAGTTCACTACAGCCCCGACCTCCTGAACTCAAGT 475/2305 3'

Hit # 2 by hsa-miR-183 in the 5'UTR
Query:  3' 0   GTCACTTAAGA--------------------------TGGTCACGGT--------------------AT 0 5'
w/o GU         ||| ||  |||                          ||||||||||                    || BLAST score 153.5
Target: 5' 685 CAGGGATGTCTGCATGGGAAGAATAACATCATGAACCACCAGTGCCAAGAAGGAATTCTCAGCAGGTTA 753/2305 3'
Query:  3' 0   GTCACTTA-AGA--------------------------TGGTCACGGTAT 0 5'
w/GU           ||| |*|| |||                          |||||||||| * BLAST score 169.5
Target: 5' 685 CAG-GGATGTCTGCATGGGAAGAATAACATCATGAACCACCAGTGCCAAG 733/2305 3'

Hit # 3 by hsa-miR-24 in the 5'UTR
Query:  3' 0   GACAAGGA---------------CGACTTGACTCGGT 0 5'
w/o GU         ||| ||||               |||||||||||||| BLAST score 192
Target: 5' 850 CTGCTCCTCCTGCAGCAGGGATGGCTGAACTGAGCCA 886/2305 3'
Query:  3' 0   GACAAGGA---------------CGACTTGACTCGGT 0 5'
w/GU           ||| ||||               |||||||||||||| BLAST score 192
Target: 5' 850 CTGCTCCTCCTGCAGCAGGGATGGCTGAACTGAGCCA 886/2305 3'

Hit # 4 by mmu-miR-199-as in the 5'UTR
Query:  3' 0    TTG---GTTACACGTC-----T--GAT----G-AC 2 5'
w/o GU          ||    ||||||||||     |  | |    | || BLAST score 127.5
Target: 5' 1522 AAGGGACAATGTGCAGGAGTGAGCCCAGGCCCATG 1556/2305 3'
Query:  3' 0    TTGGTTACACGTCTGATGACAT 0 5'
w/GU            ** ||||||||||*  | || * BLAST score 153.5
Target: 5' 1525 GGACAATGTGCAGG--AGTGAG 1544/2305 3'

Target # 31: >gi|38348730|ref|NM_017848.3| Homo sapiens hypothetical protein FLJ20506 (FLJ20506), mRNA
CDS: 61 3351
Hit # 1 by hsa-miR-217 in the CDS
Query:  3' 0   TA----------------GGTTAGTCAAGGACTACGT----CAT 0 5'
w/o GU         ||                |||| ||||||||||||||    ||| BLAST score 201.5
Target: 5' 908 ATGGGAAGAACCTCACTACCAACCAGTTCCTGATGCAAGAAGTA 951/4231 3'
Query:  3' 0   T-A-GGTTAGTCAAGGACTACGT----CAT 0 5'
w/GU           | | |||| ||||||||||||||    ||| BLAST score 200.5
Target: 5' 922 ACTACCAACCAGTTCCTGATGCAAGAAGTA 951/4231 3'

Hit # 2 by mmu-miR-147 in the CDS
Query:  3' 0    CC--------------------GTCTTCGTAAAG--GTGTGT-G 0 5'
w/o GU          ||                    ||||||||||||  ||| || | BLAST score 156
Target: 5' 1663 GGAGCTAGCTCTGATCATATCACAGAAGCATTTCATCAC-CAGC 1705/4231 3'
Query:  3' 0    CC--------------------GTCTTCGTAAAG--GTGTGTG 0 5'
w/GU            ||                    ||||||||||||  |||  *| BLAST score 158
Target: 5' 1663 GGAGCTAGCTCTGATCATATCACAGAAGCATTTCATCACCAGC 1705/4231 3'

Hit # 3 by hsa-miR-320 in the CDS
Query:  3' 0    AAG---CGGG------AGAGTTGGGTCGAAA-A 0 5'
w/o GU          |||   || |      | || |||||||||| | BLAST score 163.5
Target: 5' 2428 TTCCTTGCACAGGCAGTGTCTACCCAGCTTTAT 2460/4231 3'
Query:  3' 1    A---GCGGGAG-AGT--------------TGGGTCGAAA-A 0 5'
w/GU            |   | ||*|| |**              |||||||||| | BLAST score 166
Target: 5' 2420 TAGACACCTTCCTTGCACAGGCAGTGTCTACCCAGCTTTAT 2460/4231 3'

Hit # 4 by hsa-miR-140as in the CDS
Query:  3' 0    AGGCA----------------------CCA--------AGATGGGACA----------------CCAT 0 5'
w/o GU          |||||                      |||        ||||||||||                | || BLAST score 160.5
Target: 5' 2784 TCCGTCACCTACTTTTGTGCCTCCCATGGTGCCCTCTCTCTACCCTGTTTCACTTTATTCCCGAGCTA 2851/4231 3'
Query:  3' 0    AGGCA---------CCA--------AGATGGGACA----------------CCAT 0 5'
w/GU            |**||         |||        ||||||||||                | || BLAST score 167
Target: 5' 2797 TTTGTGCCTCCCATGGTGCCCTCTCTCTACCCTGTTTCACTTTATTCCCGAGCTA 2851/4231 3'

Hit # 5 by hsa-miR-145 in the CDS
Query:  3' 0    TTCCCT-----------AA--G----GA-------------------C--CCTTTTGACCT 1 5'
w/o GU          ||||||           ||  |    ||                   |  ||||||||||| BLAST score 171
Target: 5' 2876 AAGGGAGGAGCCGGGGATTTGCAGGTCTCCATCCAATCCCACCCCAAGGAGGAAAACTGGA 2936/4231 3'
Query:  3' 0    T--TCCCTAA------GGA-------------------C--CCTTTTGACCT--G 0 5'
w/GU            *  *||||||      *||                   |  |||||||||||  * BLAST score 184.5
Target: 5' 2885 GCCGGGGATTTGCAGGTCTCCATCCAATCCCACCCCAAGGAGGAAAACTGGAGAT 2939/4231 3'

Hit # 6 by hsa-miR-181b in the CDS
Query:  3' 0    T--TG------GG--T-GG---CTGTCGTTACTTACA--A 0 5'
w/o GU          |  ||      ||  | ||   ||||||||||| |||  | BLAST score 171.5
Target: 5' 3219 ATCACAATGTGCCTTATCCAGAGACAGCAATGAGTGTAAT 3258/4231 3'
Query:  3' 0    TTGGGTGG----CTGTCGTTACTTACA--A 0 5'
w/GU            * |**|*|    |||||||||||*|||  | BLAST score 208.5
Target: 5' 3229 GCCTTATCCAGAGACAGCAATGAGTGTAAT 3258/4231 3'

Hit # 7 by hsa-miR-21 in the CDS/3'UTR
Query:  3' 1    GTTGTAG-TC----A--------------------GACTATTCGA-T 0 5'
w/o GU          ||| | | ||    |                    |||||||||| | BLAST score 140
Target: 5' 3313 CAAAAGCTAGAAACTGTGGCACAACGGAAAGAGGACTGATAAGCTGA 3359/4231 3'
Query:  3' 0    A-GTTGTA--GTCA-------GACTATTCGAT 0 5'
w/GU            | ***||   |*|        ||||||||||* BLAST score 166
Target: 5' 3327 TGTGGCACAACGGAAAGAGGACTGATAAGCTG 3358/4231 3'

Hit # 8 by hsa-miR-105 in the 3'UTR
Query:  3' 0    TGT---CC----T--C---------------------AGACTCGTAAA-----CT 0 5'
w/o GU          |||   ||    |  |                     |||||||||||     || BLAST score 142.5
Target: 5' 3676 ACATAAGGTCCTATAGAAAAGCTCTAGCTTTGGTTTTTCTGAGCATTTATAATGA 3730/4231 3'
Query:  3' 0    TGTCCT--C----------------AGACTCGTAAA-----CT 0 5'
w/GU            |*|| |  |                |||||||||||     || BLAST score 152
Target: 5' 3688 ATAGAAAAGCTCTAGCTTTGGTTTTTCTGAGCATTTATAATGA 3730/4231 3'

Hit # 9 by hsa-miR-320 in the 3'UTR
Query:  3' 0    AAGCG--GGAGAGTTGG----GT--CGAAAA 0 5'
w/o GU          ||| |  ||||||||||    ||  | || | BLAST score 158.5
Target: 5' 4050 TTC-CTGCCTCTCAACCAGTGCATTGTTTGT 4079/4231 3'
Query:  3' 0    AAGCG-GGAGAGTTGG----GT--CGAAAA 0 5'
w/GU            ||| * ||||||||||    ||  |*|| | BLAST score 177.5
Target: 5' 4050 TTCCTGCCTCTCAACCAGTGCATTGTTTGT 4079/4231 3'

Target # 32: >gi|18780268|ref|NM_001858.2| Homo sapiens collagen, type XIX, alpha 1 (COL19A1), mRNA
CDS: 118 3549
Hit # 1 by mmu-miR-26b in the CDS
Query:  3' 0   TT---------GGATAGGACT--------------------------------TA-----ATGAACTT 0 5'
w/o GU         ||         ||||||||||                                ||      ||||||| BLAST score 160.5
Target: 5' 209 AAGAGTCATGCCCTATCCTGAGAATAGAGGGACATCAGCTGACATATGACAACATAAACAAACTTGAA 276/8730 3'
Query:  3' 0   TT------GGATAGGACT--------------------------------TA-----ATGAACTT 0 5'
w/GU           |*      ||||||||||                                ||      ||||||| BLAST score 162
Target: 5' 212 AGTCATGCCCTATCCTGAGAATAGAGGGACATCAGCTGACATATGACAACATAAACAAACTTGAA 276/8730 3'

Hit # 2 by hsa-miR-197 in the CDS
Query:  3' 0   CGAC--CCACC--TCTTCCACCAC-TT 0 5'
w/o GU         | ||  |||||  ||||||||||| || BLAST score 181
Target: 5' 523 GTTGATGGTGGAAAGAAGGTGGTGGAA 549/8730 3'
Query:  3' 0   CGAC--CCACC--TCTTCCACCACTT 0 5'
w/GU           |*||  |||||  |||||||||||*| BLAST score 202
Target: 5' 523 GTTGATGGTGGAAAGAAGGTGGTGGA 548/8730 3'

Hit # 3 by hsa-miR-183 in the CDS
Query:  3' 0   GTCACTT-A-AGA-------------------------------TGGTCACGGT-A--T 0 5'
w/o GU         |||| || | |||                               |||||||||| |  | BLAST score 159.5
Target: 5' 924 CAGTAAAATGTCTTCATATCTGCCAGCAAAGCAGGAACTTAAAGACCAGTGCCAGTGCA 982/8730 3'
Query:  3' 0   GTCACTTAAGA---TGGTCACGGT-AT 0 5'
w/GU           ||| ||| |*    |||||||||| |* BLAST score 168.5
Target: 5' 955 CAG-GAACTTAAAGACCAGTGCCAGTG 980/8730 3'

Hit # 4 by hsa-miR-186 in the CDS
Query:  3' 2    CGGGTTTTCCTCTT---------------------------------AA--GA--AA 1 5'
w/o GU          ||||||||||||||                                 ||  ||  || BLAST score 157.5
Target: 5' 1238 GCCCAAAAGGAGAAAAGGGAGATACAGGACCCCCAGGACCACCAGCCTTACCTGGTT 1294/8730 3'
Query:  3' 0    T---TCGGGTTTTCCTCTT---------------------------------AA--GA--AA 1 5'
w/GU            |   *||||||||||||||                                 ||  ||  || BLAST score 168
Target: 5' 1233 ACCTGGCCCAAAAGGAGAAAAGGGAGATACAGGACCCCCAGGACCACCAGCCTTACCTGGTT 1294/8730 3'

Hit # 5 by hsa-miR-186 in the CDS
Query:  3' 2    CGGG---------TTTTCCTCTT--A------AGAAA 1 5'
w/o GU          ||||         ||||||||||  |       |||| BLAST score 155
Target: 5' 1541 GCCCTAAAGGACAAAAAGGAGAACCTGGAGAGCCTTT 1577/8730 3'
Query:  3' 0    TTCGGG-----------------TTTTCCTCTT--A--------AGAA 2 5'
w/GU            **|*|*                 ||||||||||  |        |*|| BLAST score 172.5
Target: 5' 1531 GGGTCTGTTGGCCCTAAAGGACAAAAAGGAGAACCTGGAGAGCCTTTT 1578/8730 3'

Hit # 6 by hsa-miR-186 in the CDS
Query:  3' 0    T-TCGG-----GTTTTCCTCTT--------A---------AGA-------AAC 0 5'
w/o GU          | ||||     |||||||||||        |          ||       | | BLAST score 150
Target: 5' 1569 AGAGCCTTTTACAAAAGGAGAAAAAGGAGATAGAGGAGAACCTGGGGTAATAG 1621/8730 3'
Query:  3' 0    TTCGG-----GTTTTCCTCTT--------A---------AGA-------AAC 0 5'
w/GU            *||||     |||||||||||        |          ||       | | BLAST score 158.5
Target: 5' 1570 GAGCCTTTTACAAAAGGAGAAAAAGGAGATAGAGGAGAACCTGGGGTAATAG 1621/8730 3'

Hit # 7 by hsa-miR-186 in the CDS
Query:  3' 2    CGGGTTTTCCTCTTAAGA------AAC 0 5'
w/o GU          |||||||||| | || ||       || BLAST score 143
Target: 5' 2663 GCCCAAAAGGCG-ATCCTGGCCCAGTG 2688/8730 3'
Query:  3' 1    TCGGGTTTTCC---------------------------------TCTTAA--G----AAAC 0 5'
w/GU            *||||||||||                                 *|**||  |    || | BLAST score 164
Target: 5' 2662 GGCCCAAAAGGCGATCCTGGCCCAGTGGGAGAGCCTGGTGCAATGGGGTTGCCAGGATTAG 2722/8730 3'

Hit # 8 by hsa-miR-23b in the CDS
Query:  3' 0    C---A---CC-A----T---TAGGGACCGTTA---C-ACTA 0 5'
w/o GU          |   |   || |    |   |||||||||| |   | |||| BLAST score 152.5
Target: 5' 3113 GCCCTCCAGGCTCTCCAGGCATCCCTGGCATTCCGGCTGAT 3153/8730 3'
Query:  3' 0    C---A---CC-A----T---TAGGGACCGTTA---C-ACTA 0 5'
w/GU            |   |   || |    |   |||||||||| |   | |||| BLAST score 152.5
Target: 5' 3113 GCCCTCCAGGCTCTCCAGGCATCCCTGGCATTCCGGCTGAT 3153/8730 3'

Hit # 9 by hsa-miR-217 in the CDS
Query:  3' 1    AGGT---TAGT--C---AAG---GACTACGTCA---T 0 5'
w/o GU          ||||   |||   |   |||   ||||||||||   | BLAST score 170.5
Target: 5' 3126 TCCAGGCATCCCTGGCATTCCGGCTGATGCAGTTTCA 3162/8730 3'
Query:  3' 1    AGGTT---AG---TC--AAG---GACTACGTCA---T 0 5'
w/GU            ||||*   ||   *|  |||   ||||||||||   | BLAST score 183
Target: 5' 3126 TCCAGGCATCCCTGGCATTCCGGCTGATGCAGTTTCA 3162/8730 3'

Hit # 10 by hsa-miR-136 in the 3'UTR
Query:  3' 1    GGTAGTAGTTTTGTTT-------------------ACCTCA 0 5'
w/o GU          ||| ||||||||||||                   |||| | BLAST score 177.5
Target: 5' 4513 CCACCATCAAAACAAAGGATGGGATACGTATAGAATGGACT 4553/8730 3'
Query:  3' 1    GGTAGTAGTTTTGTTT---ACCTCA 0 5'
w/GU            ||| ||||||||||||   |||* | BLAST score 185.5
Target: 5' 4513 CCACCATCAAAACAAAGGATGGGAT 4537/8730 3'

Hit # 11 by hsa-miR-186 in the 3'UTR
Query:  3' 0    TTCGGGTTTTC--------CTCTTAAGA-AA 1 5'
w/o GU          |||||||||||        ||||||| | || BLAST score 187
Target: 5' 4608 AAGCCCAAAAGCTCTTAAGGAGAATTGTATT 4638/8730 3'
Query:  3' 0    TTCGGGTTTTC--------CTCTTAA-G-AAA 1 5'
w/GU            |||||||||||        ||||||| * ||| BLAST score 191
Target: 5' 4608 AAGCCCAAAAGCTCTTAAGGAGAATTGTATTT 4639/8730 3'

Hit # 12 by hsa-miR-186 in the 3'UTR
Query:  3' 0    TTCGGGTT--------TTCCTCTTAAGA-AA 1 5'
w/o GU          ||||||||        |||||||||| | || BLAST score 187
Target: 5' 4608 AAGCCCAAAAGCTCTTAAGGAGAATTGTATT 4638/8730 3'
Query:  3' 0    TTCGGGTT--------TTCCTCTTAA-G-AAA 1 5'
w/GU            ||||||||        |||||||||| * ||| BLAST score 191
Target: 5' 4608 AAGCCCAAAAGCTCTTAAGGAGAATTGTATTT 4639/8730 3'

Hit # 13 by hsa-miR-199a in the 3'UTR
Query:  3' 0    TT-----------GTCC---A-TCAGA---CTTGTGACCC 0 5'
w/o GU          ||           ||||   | | |||   |||||||||| BLAST score 166.5
Target: 5' 4826 AACTGTTGATTGGCAGGCACTGATTCTCTAGAACACTGGG 4865/8730 3'
Query:  3' 0    TTGTCC---ATCAG-A---CTTGTGACCC 0 5'
w/GU            **||||   |* |* |   |||||||||| BLAST score 180
Target: 5' 4837 GGCAGGCACTGATTCTCTAGAACACTGGG 4865/8730 3'

Hit # 14 by hsa-miR-215 in the 3'UTR
Query:  3' 0    CAGAC---AGTTAAGTAT-----CCAGTA 0 5'
w/o GU          || ||   ||||||||||     || | | BLAST score 152.5
Target: 5' 6547 GTATGACTTCAATTCATATTTATGGCCTT 6575/8730 3'
Query:  3' 0    CAGAC---AGTTAAGTAT-----CC---AG---TA 0 5'
w/GU            || ||   ||||||||||     ||   |*   || BLAST score 158.5
Target: 5' 6547 GTATGACTTCAATTCATATTTATGGCCTTTGGAAT 6581/8730 3'

Hit # 15 by hsa-miR-19b in the 3'UTR
Query:  3' 0    AGTC-AAA-AC-----------------------------------GTACCTAAAC--GT----------GT 0 5'
w/o GU          |||  ||| ||                                   ||||||||||  ||          || BLAST score 153
Target: 5' 6560 TCATATTTATGGCCTTTGGAATCCAAAGAAAAACAGAAGAATAATTCATGGATTTGTTCATTGTTCTTTCCA 6631/8730 3'
Query:  3' 0    AGTCA----AAAC----------------------------GTACCTAAACGTGT 0 5'
w/GU            |*| |    ||||                            ||||||||||* || BLAST score 167
Target: 5' 6566 TTA-TGGCCTTTGGAATCCAAAGAAAAACAGAAGAATAATTCATGGATTTGTTCA 6619/8730 3'

Hit # 16 by hsa-miR-137 in the 3'UTR
Query:  3' 0    GA-----TGCGCATAA---------------------------------GAATTCGTTA-T 0 5'
w/o GU          ||     | | |||||                                 |||||||||| | BLAST score 145.5
Target: 5' 6737 CTATTTCATG-GTATTGTTTAAACTTTAAAATTTTAGTCACTTAAAGAACTTAAGCAATTA 6796/8730 3'
Query:  3' 0    GA-TGCGCATAA---------------------------------GAATTCGTTA-T 0 5'
w/GU            *| |*| |||||                                 |||||||||| | BLAST score 160
Target: 5' 6741 TTCATG-GTATTGTTTAAACTTTAAAATTTTAGTCACTTAAAGAACTTAAGCAATTA 6796/8730 3'

Hit # 17 by hsa-miR-221 in the 3'UTR
Query:  3' 0    CTT---------TGG----G------TCGTCTGTTA------------------------------CATCGA 0 5'
w/o GU          |||         | |    |      ||||||||||                              || ||| BLAST score 148.5
Target: 5' 7334 GAAAAAAGATTTAGCTTATCACAAGAAGCAGACAATTTATAAAACTACACAATGTCTAAACTCTATGTTGCT 7405/8730 3'
Query:  3' 0    CT---TTGGG---------TCGTCTGTTA------------------------------CATCGA 0 5'
w/GU            ||   |*|**         ||||||||||                              || ||| BLAST score 172.5
Target: 5' 7341 GATTTAGCTTATCACAAGAAGCAGACAATTTATAAAACTACACAATGTCTAAACTCTATGTTGCT 7405/8730 3'

Target # 33: >gi|27481231|ref|XM_211898.1| Homo sapiens hypothetical protein LOC285431 (LOC285431), mRNA
CDS: 319 636
Hit # 1 by hsa-miR-133a in the 3'UTR
Query:  3' 0   TGT-CGA-CC-AA-----------CTTCCCCTGG 2 5'
w/o GU         ||| ||  || ||           |||||||||| BLAST score 148.5
Target: 5' 817 ACACGCGAGGCTTTCAGGCGTGCAGAAGGGGACC 850/2466 3'
Query:  3' 0   TGT-CGA-CC-AA-----------CTTCCCCTGGT--T 0 5'
w/GU           ||| ||  || ||           ||||||||||*  * BLAST score 159.5
Target: 5' 817 ACACGCGAGGCTTTCAGGCGTGCAGAAGGGGACCGCCG 854/2466 3'

Hit # 2 by mmu-miR-187 in the 3'UTR
Query:  3' 0   GGCCGACGTTG-------T--GTT--CT--G-----TGCT 0 5'
w/o GU         |||||||||||       |  |||  ||  |     |||| BLAST score 171
Target: 5' 993 CCGGCTGCAACCTCTCCCACTCAAGAGACCCTAGGAACGA 1032/2466 3'
Query:  3' 0   GGCCGACGTTG----------------------------TGTTCTGTGCT 0 5'
w/GU           |||||||||||                            |**||* |||* BLAST score 185.5
Target: 5' 993 CCGGCTGCAACCTCTCCCACTCAAGAGACCCTAGGAACGATGAGGAACGG 1042/2466 3'

Hit # 3 by hsa-miR-186 in the 3'UTR
Query:  3' 0    TTCGGGTTTTCCTC------------------------TTA------A------GAAA-C 0 5'
w/o GU          | ||||||||||||                        |||      |      |||| | BLAST score 167
Target: 5' 1128 ATGCCCAAAAGGAGCTTATGTCTCAACTGAGAACAGCAAATAGGTGATGGGCCACTTTAG 1187/2466 3'
Query:  3' 0    TTCGGGTTTTCCTC-------------------------------TTA-----AGAAA-C 0 5'
w/GU            | ||||||||||||                               *||      |||| | BLAST score 162.5
Target: 5' 1128 ATGCCCAAAAGGAGCTTATGTCTCAACTGAGAACAGCAAATAGGTGATGGGCCACTTTAG 1187/2466 3'

Hit # 4 by hsa-miR-17-3p in the 3'UTR
Query:  3' 0    TGTTCACGGAAGTG-------------------AC---GTCA 0 5'
w/o GU          ||||||||||||||                   ||   |||| BLAST score 173
Target: 5' 1257 ACAAGTGCCTTCACAGGTAGCAAGCAATTAATCTGCAACAGT 1298/2466 3'
Query:  3' 0    TGTTCACGGAAGTG-------------------AC---GTCA 0 5'
w/GU            ||||||||||||||                   ||   |||| BLAST score 173
Target: 5' 1257 ACAAGTGCCTTCACAGGTAGCAAGCAATTAATCTGCAACAGT 1298/2466 3'

Hit # 5 by hsa-miR-130a in the 3'UTR
Query:  3' 1    GG-----GAAAATTGTA-A-CGTGA 1 5'
w/o GU          ||     |||||||||| | | ||| BLAST score 140
Target: 5' 1762 CCAGCGTCTTTTAACATGTGGAACT 1786/2466 3'
Query:  3' 0    CG-GGAAAATTGTA---------A--CGTGAC 0 5'
w/GU            || *||||||||||         |  |* *|| BLAST score 157.5
Target: 5' 1765 GCGTCTTTTAACATGTGGAACTTTCGGTTTTG 1796/2466 3'

Hit # 6 by mmu-miR-9* in the 3'UTR
Query:  3' 0    TGAAAGCCAA---------------------------TAGATCGA---AAT 0 5'
w/o GU          ||||||||||                           | || |||   ||| BLAST score 154
Target: 5' 1784 ACTTTCGGTTTTGGTTTAGCTCTGTGAACGTATTTAAAACTTGCTACATTA 1834/2466 3'
Query:  3' 0    TGAAAGCCAA---TAGATCGAAAT 0 5'
w/GU            ||||||||||   *|*||||| |* BLAST score 188
Target: 5' 1784 ACTTTCGGTTTTGGTTTAGCTCTG 1807/2466 3'

Hit # 7 by hsa-miR-130a in the 3'UTR
Query:  3' 0    CGGGAAAATTGTA-AC------------------------GTGAC 0 5'
w/o GU          | ||||||||||| ||                        || || BLAST score 140.5
Target: 5' 1879 G-CCTTTTAACATCTGTCATATTTTCTATAAACAACTTTTCAGTG 1922/2466 3'
Query:  3' 0    CG-GGAAAATTGTA-AC---GTGA 1 5'
w/GU            |* ||||||||||| ||   *|*| BLAST score 163.5
Target: 5' 1877 GTGCCTTTTAACATCTGTCATATT 1900/2466 3'

Hit # 8 by hsa-miR-95 in the 3'UTR
Query:  3' 0    ACGAGTTATTTATGGGCAACTT 0 5'
w/o GU          ||||||||||||    |||||| BLAST score 170
Target: 5' 2407 TGCTCAATAAATGTTTGTTGAA 2428/2466 3'
Query:  3' 0    ACGAGTTATTTATGGGCAACTT 0 5'
w/GU            ||||||||||||****|||||| BLAST score 220
Target: 5' 2407 TGCTCAATAAATGTTTGTTGAA 2428/2466 3'

Target # 34: >gi|37546328|ref|XM_049884.2| Homo sapiens KIAA1854 protein (KIAA1854), mRNA
CDS: 988 3525
Hit # 1 by hsa-miR-214 in the CDS
Query:  3' 0    GACG---------------------GACAGACACG------------------GAC--------GACA 0 5'
w/o GU          ||||                     ||||||||||                  |||        |||| BLAST score 162.5
Target: 5' 1058 CTGCCAAAGACATTTGCAAGATCCGCTGTCTGTGCGAAGAAAAGGAAAACGTACTGAATATCAACTGT 1125/3525 3'
Query:  3' 0    GACG--------GACAGACACG------------------GAC--------GACA 0 5'
w/GU            *|||        ||||||||||                  |||        |||| BLAST score 169
Target: 5' 1071 TTGCAAGATCCGCTGTCTGTGCGAAGAAAAGGAAAACGTACTGAATATCAACTGT 1125/3525 3'

Hit # 2 by mmu-miR-146 in the CDS
Query:  3' 0    TTTGGGTACCTTAA-GT-----C-------A--AGAGT 0 5'
w/o GU          ||| |||||||||| ||     |       |  ||||| BLAST score 178
Target: 5' 1632 AAATCCATGGAATTGCACTTGTGACTTACTTCCTCTCA 1669/3525 3'
Query:  3' 0    TTTGGGTACCTTAA------------GTCAA---GAGT 0 5'
w/GU            |||*||||||||||            *| ||   |||| BLAST score 194
Target: 5' 1632 AAATCCATGGAATTGCACTTGTGACTTACTTCCTCTCA 1669/3525 3'

Hit # 3 by hsa-miR-320 in the CDS
Query:  3' 0    A-AGCGG--------------GAGAGTTGGGT------CGA 3 5'
w/o GU          | || ||              |||||||||||      ||| BLAST score 153
Target: 5' 1841 TGTCACCTACAATGAATCCTGCTCTCAACCCAACCAGGGCT 1881/3525 3'
Query:  3' 1    AGCGGGAGAGTTGGGT------CGA 3 5'
w/GU            || * |||||||||||      ||| BLAST score 154
Target: 5' 1857 TCCTGCTCTCAACCCAACCAGGGCT 1881/3525 3'

Hit # 4 by mmu-miR-26b in the CDS
Query:  3' 1    T---GGATAGGACTTAAT----GAACTT 0 5'
w/o GU          |   ||||||||||| ||    | |||| BLAST score 159.5
Target: 5' 2806 AGTTCCTATCCTGAACTACACAC-TGAA 2832/3525 3'
Query:  3' 0    TT--GGATAGGACTT---------------------------AA-TGA-ACTT 0 5'
w/GU            |*  |||||||||||                           || |*| ||** BLAST score 172.5
Target: 5' 2806 AGTTCCTATCCTGAACTACACACTGAAGTTCCACTGTCTGTCTTAATTCTGGG 2858/3525 3'

Hit # 5 by hsa-miR-222 in the CDS
Query:  3' 0    CTCTGGGTCATCGG-----------------TCT-ACATCGA 0 5'
w/o GU          ||||||||||||||                 ||| |  |||| BLAST score 190
Target: 5' 3104 GAGACCCAGTAGCCTATTACCGAAACCTGCAAGAGTTCAGCT 3145/3525 3'
Query:  3' 0    CTCTGGGTCATCGG-----------------TC-TACATCGA 0 5'
w/GU            ||||||||||||||                 || *|  |||| BLAST score 190
Target: 5' 3104 GAGACCCAGTAGCCTATTACCGAAACCTGCAAGAGTTCAGCT 3145/3525 3'

Target # 35: >gi|30159635|ref|XM_167045.3| Homo sapiens similar to ATP-dependent RNA helicase DDX24 (DEAD-box protein 24) (LOC221311), mRNA
CDS: 1 831
Hit # 1 by hsa-miR-194 in the CDS
Query:  3' 5 TACCTCAACGACAATGT 0 5'
w/o GU       ||||||||||||  ||| BLAST score 141
Target: 5' 1 ATGGAGTTGCTG--ACA 15/831 3'
Query:  3' 5 TACCTCAACGAC-----------------AATGT 0 5'
w/GU         ||||||||||||                 |||** BLAST score 153.5
Target: 5' 1 ATGGAGTTGCTGACAGATACCAAGATCCATTATG 34/831 3'

Hit # 2 by hsa-miR-217 in the CDS
Query:  3' 0  TAGGT--TAGTC------------------------------AAGGACTACGTCAT 0 5'
w/o GU        |||||  || ||                              |||||||||||||| BLAST score 195.5
Target: 5' 25 ATCCATTATGAGACTGATGAGAAAGACTTCCACCTGTACTACTTCCTGATGCAGTA 80/831 3'
Query:  3' 0  TA----GGTTAGTC---------------------AAGGACTACGTCAT 0 5'
w/GU          ||    |**|| ||                     |||||||||||||| BLAST score 199
Target: 5' 32 ATGAGACTGATGAGAAAGACTTCCACCTGTACTACTTCCTGATGCAGTA 80/831 3'

Hit # 3 by hsa-miR-196 in the CDS
Query:  3' 0   GGTTGTTGTA------------------------C------TTTGATGGAT 0 5'
w/o GU         ||||||||||                        |      ||| | |||| BLAST score 148
Target: 5' 104 CCAACAACATCTCTTACATCACACACCTTTCTAGGCTCCTCAAAGT-CCTA 153/831 3'
Query:  3' 0   GGTTGTTGTA---------------------CTTTGATGGAT 0 5'
w/GU           ||||||||||                      |**|| |* | BLAST score 154
Target: 5' 104 CCAACAACATCTCTTACATCACACACCTTTCTAGGCTCCTCA 145/831 3'

Target # 36: >gi|16933541|ref|NM_002026.1| Homo sapiens fibronectin 1 (FN1), transcript variant 1, mRNA
CDS: 268 7335
Hit # 1 by hsa-miR-186 in the CDS
Query:  3' 0   TT-CGGGTTTTCCTCTTA----------------------------AGAAAC 0 5'
w/o GU         || |   |||||||||||                            | |||| BLAST score 139.5
Target: 5' 781 AATGG--AAAAGGAGAATGGACCTGCAAGCCCATAGCTGAGAAGTGT-TTTG 829/8027 3'
Query:  3' 0   TTCGGG---------TTTTCCTCTTA--------------------------A-GAAAC 0 5'
w/GU           * |*|*         |||||||||||                          | *|||| BLAST score 175.5
Target: 5' 771 GTGTCTTGGTAATGGAAAAGGAGAATGGACCTGCAAGCCCATAGCTGAGAAGTGTTTTG 829/8027 3'

Hit # 2 by hsa-miR-196 in the CDS
Query:  3' 1    GT------TGTTGTACTT--------------------TGAT-----GGAT 0 5'
w/o GU          ||      ||||||||||                    ||||     || | BLAST score 148
Target: 5' 1581 CAGAAGAGACAACATGAAGTGGTGTGGGACCACACAGAACTATGATGCCGA 1631/8027 3'
Query:  3' 0    GGT------------TGTTGTACTTTG--ATG--------------GAT 0 5'
w/GU            |**            ||||||||||**  |**              ||| BLAST score 172
Target: 5' 1574 CTGAGGGCAGAAGAGACAACATGAAGTGGTGTGGGACCACACAGAACTA 1622/8027 3'

Hit # 3 by hsa-miR-24 in the CDS
Query:  3' 1    AC---------AAGG------------------------ACGACTTGAC---T-------CGGT 0 5'
w/o GU          ||         ||||                        ||||||||||   |       | || BLAST score 144
Target: 5' 1847 TGAACGACACATTCCACAAGCGTCATGAAGAGGGGCACATGCTGAACTGTACATGCTTCGGTCA 1910/8027 3'
Query:  3' 0    G-AC---------AAGG------------------------ACGACTTGAC----------TCGGT 0 5'
w/GU            * ||         ||||                        ||||||||||          *|*|| BLAST score 166
Target: 5' 1845 TGTGAACGACACATTCCACAAGCGTCATGAAGAGGGGCACATGCTGAACTGTACATGCTTCGGTCA 1910/8027 3'

Hit # 4 by hsa-miR-220 in the CDS
Query:  3' 0    TT--T--------CACAGTCTATG-----------------------------CCACACC 0 5'
w/o GU          ||  |        |||||||||||                             || |||| BLAST score 154
Target: 5' 1999 AAGTATGTGCATGGTGTCAGATACCAGTGCTACTGCTATGGCCGTGGCATTGGGGAGTGG 2058/8027 3'
Query:  3' 0    TTTCACAGTCTATG-----------------------------CCACACC 0 5'
w/GU            | *|||||||||||                             || |||| BLAST score 162.5
Target: 5' 2009 ATGGTGTCAGATACCAGTGCTACTGCTATGGCCGTGGCATTGGGGAGTGG 2058/8027 3'

Hit # 5 by hsa-miR-200b in the CDS
Query:  3' 0    GTA---GTAAT---------------GGTCCGTCAT-------------------A-----AT------CTC 0 5'
w/o GU          | |   | |||               ||||||||||                   |     ||      ||| BLAST score 151
Target: 5' 3357 CGTGGGCCTTACCCGAAGAGGCCAGCCCAGGCAGTACAATGTGGGTCCCTCTGTCTCCAAGTACCCCCTGAG 3428/8027 3'
Query:  3' 0    GTAGT---AAT---------------GGTCCGTCAT---A-ATCT 1 5'
w/GU            |*| *   |||               ||||||||||   | |*|* BLAST score 174.5
Target: 5' 3357 CGTGGGCCTTACCCGAAGAGGCCAGCCCAGGCAGTACAATGTGGG 3401/8027 3'

Hit # 6 by mmu-miR-122b in the CDS
Query:  3' 0    A---GTT-------TGTGGTAACAG-------TG--TG-AGGT 0 5'
w/o GU          |   |||       |||||||||||       ||  || | || BLAST score 167.5
Target: 5' 3767 TAAACAAAGTGGTGACACCATTGTCTCCACCAACAAACTTGCA 3809/8027 3'
Query:  3' 1    GTT--TGTGGTAACAG-------TG--TGAG-GT 0 5'
w/GU            ***  |||||||||||       ||  |||* || BLAST score 182
Target: 5' 3776 TGGTGACACCATTGTCTCCACCAACAAACTTGCA 3809/8027 3'

Hit # 7 by mmu-miR-204 in the CDS
Query:  3' 0    GTC-C----GT-A----TCCTACTGTTTCCCTT 0 5'
w/o GU          ||| |    || |    ||||||||||  |||| BLAST score 164
Target: 5' 4002 CAGTGTTTACACTGTCAAGGATGACAA--GGAA 4032/8027 3'
Query:  3' 0    GTCCGTA-----------TCCTACTGTTTCCCTT 0 5'
w/GU            ||| **|           ||||||||||*|  |* BLAST score 173
Target: 5' 4002 CAG-TGTTTACACTGTCAAGGATGACAAGGAAAG 4034/8027 3'

Hit # 8 by hsa-miR-196 in the CDS
Query:  3' 0    GGTTGTTGTACT-T--TGATGG---AT 0 5'
w/o GU          | |||||||||| |  || |||   || BLAST score 152
Target: 5' 4293 CGAACAACATGAGAGCAC-ACCTCTTA 4318/8027 3'
Query:  3' 0    GG---TTGTTGTACT-TTG-AT---GGAT 0 5'
w/GU            |*   |||||||||| |*|  |   |*|| BLAST score 161.5
Target: 5' 4290 CTACGAACAACATGAGAGCACACCTCTTA 4318/8027 3'

Hit # 9 by hsa-miR-107 in the CDS
Query:  3' 1    C--TATCGGGACA-----T---GTTACGAC-GA 0 5'
w/o GU          |  ||||||||||     |   || || || || BLAST score 151.5
Target: 5' 4727 GAAATAGCCCTGTCCAGGAGTTCACTG-TGCCT 4758/8027 3'
Query:  3' 1    C--TATCGGGACA---TGTTACG----AC-GA 0 5'
w/GU            |  ||||||||||   * |*| |    || || BLAST score 158
Target: 5' 4727 GAAATAGCCCTGTCCAGGAGTTCACTGTGCCT 4758/8027 3'

Hit # 10 by hsa-miR-128a in the CDS
Query:  3' 0    T--TTTCTCTGG-C-------CAAGTGACAC 1 5'
w/o GU          |  ||| || || |       |||||||||| BLAST score 156
Target: 5' 4725 AGGAAATAGCCCTGTCCAGGAGTTCACTGTG 4755/8027 3'
Query:  3' 0    TTTTCTCTGGC------------CAAGTGACAC---T 0 5'
w/GU            **|*|| |* |            ||||||||||   * BLAST score 171.5
Target: 5' 4723 GGAGGAAATAGCCCTGTCCAGGAGTTCACTGTGCCTG 4759/8027 3'

Hit # 11 by hsa-miR-124a in the CDS
Query:  3' 0    ACCGTAAGTG---------GC-GC-ACGG-AATT 0 5'
w/o GU          ||||||||||          | || | || | || BLAST score 144.5
Target: 5' 5180 TGGCATTCACTGATGTGGATGTCGATTCCATCAA 5213/8027 3'
Query:  3' 0    ACCGTAAGTGGC-GCA----CGG-----------------AATT 0 5'
w/GU            ||||||||||*| *||    |*|                 ||** BLAST score 185
Target: 5' 5180 TGGCATTCACTGATGTGGATGTCGATTCCATCAAAATTGCTTGG 5223/8027 3'

Hit # 12 by hsa-miR-34 in the CDS
Query:  3' 2    TT-GG---TCGA-----------------------TTCTGTGACG-------GT 0 5'
w/o GU          || ||   ||||                       ||||||||||       || BLAST score 151
Target: 5' 5283 AATCCATGAGCTATTCCCTGCACCTGATGGTGAAGAAGACACTGCAGAGCTGCA 5336/8027 3'
Query:  3' 0    TGT------TGGTCGA-----------------------TTCTGTGACG-----GT 0 5'
w/GU            |**      |* ||||                       ||||||||||     ** BLAST score 166.5
Target: 5' 5279 ATGGAATCCATGAGCTATTCCCTGCACCTGATGGTGAAGAAGACACTGCAGAGCTG 5334/8027 3'

Hit # 13 by hsa-miR-222 in the CDS
Query:  3' 0    CTCTGGGTCA--TCGGTCTACA----TCGA 0 5'
w/o GU          |||| ||| |  ||||||||||    |||| BLAST score 190
Target: 5' 5841 GAGAACCA-TCAAGCCAGATGTCAGAAGCT 5869/8027 3'
Query:  3' 0    CTCTGGGTCA--TCGGTCTACA----TCGA 0 5'
w/GU            |||| ||| |  ||||||||||    |||| BLAST score 190
Target: 5' 5841 GAGAACCA-TCAAGCCAGATGTCAGAAGCT 5869/8027 3'

Hit # 14 by hsa-miR-144 in the CDS
Query:  3' 0    GA-TCATGTAGTA--G---A-TATGACA 1 5'
w/o GU          || ||||||||||  |   | || |||| BLAST score 162
Target: 5' 6563 CTGAGTACATCATTTCATGTCATCCTGT 6590/8027 3'
Query:  3' 0    GA-TCATGTAGTAGA------TATGAC-AT 0 5'
w/GU            || ||||||||||*|      || ||| |* BLAST score 179.5
Target: 5' 6563 CTGAGTACATCATTTCATGTCATCCTGTTG 6592/8027 3'

Hit # 15 by hsa-miR-183 in the CDS
Query:  3' 0    GTCA---C---------TT-AAGATGGTCACGGT---A-T 0 5'
w/o GU          ||||   |         || ||||||||||||||   | | BLAST score 181.5
Target: 5' 6613 CAGTTCAGGGTTCCTGGAACTTCTACCAGTGCCACTCTGA 6652/8027 3'
Query:  3' 0    GTCA---CTT----------AAGATGGTCACGGT---AT 0 5'
w/GU            ||||   |**          ||||||||||||||   |* BLAST score 198
Target: 5' 6613 CAGTTCAGGGTTCCTGGAACTTCTACCAGTGCCACTCTG 6651/8027 3'

Hit # 16 by hsa-miR-186 in the CDS
Query:  3' 0    TTCGGGTTTTCCTCTTAAG---AAAC 0 5'
w/o GU          || |  |||||||||||||   | || BLAST score 164.5
Target: 5' 7015 AA-CGGAAAAGGAGAATTCAAGTGTG 7039/8027 3'
Query:  3' 0    TT--------CGGG---------TTTTCCTCTTAAG---AAAC 0 5'
w/GU            |*        |*|*         |||||||||||||   | || BLAST score 183.5
Target: 5' 6997 AGCTGCACATGTCTTGGGAACGGAAAAGGAGAATTCAAGTGTG 7039/8027 3'

Hit # 17 by hsa-miR-143 in the CDS
Query:  3' 0    A--CTCGATG-------------------------------------TCACGAAGTA-----------------GA--GT 0 5'
w/o GU          |  ||| |||                                     ||||||||||                 ||  || BLAST score 146.5
Target: 5' 7236 TCAGAGATACCATCAGAGAACAAACACTAATGTTAATTGCCCAATTGAGTGCTTCATGCCTTTAGATGTACAGGCTGACA 7315/8027 3'
Query:  3' 0    AC--TCGATG-------TCACGAAGTA---GAGT 0 5'
w/GU            ||  | *|*|       ||||||||||   *|*| BLAST score 177.5
Target: 5' 7266 TGTTAATTGCCCAATTGAGTGCTTCATGCCTTTA 7299/8027 3'

Hit # 18 by hsa-miR-142* in the 3'UTR
Query:  3' 0    A--GGTAT-----TTCATCCTTT----------GTGATG 1 5'
w/o GU          |  ||| |     ||||||||||          |||| | BLAST score 162.5
Target: 5' 7672 TGACCAAAATTTTAAGTAGGAAAGTCACCCAAACACTTC 7710/8027 3'
Query:  3' 0    AGGT---AT----------------TTCATCCTTT----------GT---GATG 1 5'
w/GU            |***   |*                ||||||||||          ||   ||*| BLAST score 172
Target: 5' 7660 TTTGAAATGATATGACCAAAATTTTAAGTAGGAAAGTCACCCAAACACTTCTGC 7713/8027 3'

Hit # 19 by hsa-miR-1d in the 3'UTR
Query:  3' 0    TTATGTATGA-AG-----------AAATGTAAGGT 0 5'
w/o GU          || ||| ||| |            ||||||||||| BLAST score 164.5
Target: 5' 7992 AAGACA-ACTGTTTTAATAAAAGATTTACATTCCA 8025/8027 3'
Query:  3' 0    TTATGT--ATGAAG---------AAATGTAAGGT 0 5'
w/GU            || |||  |**||*         ||||||||||| BLAST score 196
Target: 5' 7992 AAGACAACTGTTTTAATAAAAGATTTACATTCCA 8025/8027 3'

Target # 37: >gi|29729438|ref|XM_295416.1| Homo sapiens LOC343220 (LOC343220), mRNA
CDS: 1 426
Hit # 1 by hsa-miR-101 in the CDS
Query:  3' 0  GA---AGTCAATAGTGTCA----T--GAC--AT 0 5'
w/o GU        ||   ||||||||||||||    |  |||  || BLAST score 182.5
Target: 5' 54 CTGGCTCAGTTATCACAGTGCTGATGCTGTCTA 86/426 3'
Query:  3' 0  GA---AGTCAATAGTGTCATGAC-AT 0 5'
w/GU          ||   ||||||||||||||*||| |* BLAST score 202
Target: 5' 54 CTGGCTCAGTTATCACAGTGCTGATG 79/426 3'

Hit # 2 by hsa-miR-96 in the CDS
Query:  3' 1  G-TTT---TTA--C-----------------------------ACGATCACGG----TTT 0 5'
w/o GU        | |||   |||  |                             ||||||||||    ||| BLAST score 150.5
Target: 5' 89 CTAAAGTGAATATGTGGGTGATGGCTTGGAACTTAAGCTTTTTTGCTAGTGCCCCACAAA 148/426 3'
Query:  3' 0   CGTTT-TTAC--------------------ACGATCACGG----TTT 0 5'
w/GU           |**** *|||                    ||||||||||    ||| BLAST score 183.5
Target: 5' 102 GTGGGTGATGGCTTGGAACTTAAGCTTTTTTGCTAGTGCCCCACAAA 148/426 3'

Target # 38: >gi|29731439|ref|XM_291531.1| Homo sapiens similar to hypothetical protein D11Ertd497e (LOC343360), mRNA
CDS: 1 1911
Hit # 1 by hsa-miR-320 in the CDS
Query:  3' 0   AA--------------GCGGGAGAGTTGGG------TCGAAA 1 5'
w/o GU         ||              ||||||||||||||      |||| | BLAST score 181.5
Target: 5' 749 TTGGGCCAGGAAGTCCCGCCCTCTCAACCCCAGTGCAGCTGT 790/1911 3'
Query:  3' 0   AA--------------GCGGGAGAGTTGGG------TCGAAA 1 5'
w/GU           ||              ||||||||||||||      |||| | BLAST score 181.5
Target: 5' 749 TTGGGCCAGGAAGTCCCGCCCTCTCAACCCCAGTGCAGCTGT 790/1911 3'

Hit # 2 by mmu-miR-201 in the CDS
Query:  3' 1    CTTGTTA---CG-----GAATGACTCA-T 0 5'
w/o GU          || || |   ||     |||||||||| | BLAST score 146.5
Target: 5' 1276 GAGCAGTTTCGCTCCTACTTACTGAGTGA 1304/1911 3'
Query:  3' 0    TCTTGTTA---CG-----GAATGACTCAT 0 5'
w/GU            *||*||*|   ||     ||||||||||* BLAST score 190
Target: 5' 1275 GGAGCAGTTTCGCTCCTACTTACTGAGTG 1303/1911 3'

Hit # 3 by mmu-miR-146 in the CDS
Query:  3' 0    T---TT--GG--GTACCTTAAGTCAAGA----GT 0 5'
w/o GU          |   ||  ||  ||||||||||| | ||    || BLAST score 161.5
Target: 5' 1311 ATGGAAGGCCCTCATGGAATTCA-TCCTGCGCCA 1343/1911 3'
Query:  3' 0    TTTGG--GTACCTTAAGTCAAGA-GT 0 5'
w/GU            |**||  ||||||||||| | || |* BLAST score 181.5
Target: 5' 1316 AGGCCCTCATGGAATTCA-TCCTGCG 1340/1911 3'

Target # 39: >gi|24307884|ref|NM_004439.1| Homo sapiens EphA5 (EPHA5), mRNA
CDS: 712 3825
Hit # 1 by hsa-miR-18 in the 5'UTR
Query:  3' 0   A---TAGACGTGATC-----TACGTG--------G--AAT 0 5'
w/o GU         |   |||||||||||     | | ||        |  ||| BLAST score 148
Target: 5' 458 TCAGATCTGCACTAGCAACCA-GAACTAATATTTCATTTA 496/3903 3'
Query:  3' 0   A---TAGACGTGATC------------TACGTGG--AAT 0 5'
w/GU           |   |||||||||||            || * *|  ||| BLAST score 162.5
Target: 5' 458 TCAGATCTGCACTAGCAACCAGAACTAATATTTCATTTA 496/3903 3'

Hit # 2 by hsa-miR-127 in the 5'UTR
Query:  3' 0   TCGG--TTC--------------GAGTCTGCCTAGGC 1 5'
w/o GU         ||||  |||              |||||||||||||| BLAST score 186
Target: 5' 523 AGCCAGAAGCAAACTTCATCTGTCTCAGACGGATCCG 559/3903 3'
Query:  3' 0   TCGGTT--C--------------GAGTCTGCCTAGGC-T 0 5'
w/GU           |||||*  |              |||||||||||||| * BLAST score 187.5
Target: 5' 523 AGCCAGAAGCAAACTTCATCTGTCTCAGACGGATCCGTG 561/3903 3'

Hit # 3 by hsa-miR-140as in the 5'UTR
Query:  3' 0   AGGCACCAAG-ATG--------------GGACA------C-CAT 0 5'
w/o GU         |||||||||| |||              | |||      | ||| BLAST score 164.5
Target: 5' 556 TCCGTGGTTCCTACATTTGGAGGAGCCGCGTGTCAGAAGGCGTA 599/3903 3'
Query:  3' 0   AGGCACCAAG-ATG-GGA-CACCAT 0 5'
w/GU           |||||||||| ||| **| | || * BLAST score 169.5
Target: 5' 556 TCCGTGGTTCCTACATTTGGAGGAG 580/3903 3'

Hit # 4 by hsa-miR-198 in the CDS
Query:  3' 0   GGA--TA---GAGGGGAGACCTG---G 0 5'
w/o GU         |||  |    |||||||||||||   | BLAST score 149.5
Target: 5' 814 CCTCGACGGGCTCCCCTCTGGACGTGC 840/3903 3'
Query:  3' 0   GGAT----A-------GAGGGGAGACCTG-G 0 5'
w/GU           *||*    |       ||||||||||||| * BLAST score 160
Target: 5' 808 TCTGCACCTCGACGGGCTCCCCTCTGGACGT 838/3903 3'

Hit # 5 by hsa-miR-196 in the CDS
Query:  3' 2    TTG-----T----TGT--ACTTTGATGG--------------AT 0 5'
w/o GU          ||      |    ||   ||||||||||              || BLAST score 120.5
Target: 5' 2774 AAGTTTGTAGTGGACGTTTGAAACTACCAGGAAAAAGAGAATTA 2817/3903 3'
Query:  3' 0    GGTTGTTGT------ACTTTGATGGAT 0 5'
w/GU            ** **|***      |||||||||| * BLAST score 174
Target: 5' 2777 TTTGTAGTGGACGTTTGAAACTACCAG 2803/3903 3'

Hit # 6 by mmu-miR-126* in the CDS
Query:  3' 1    CGCA----TGGTTTTCATT-----ATTAC 0 5'
w/o GU          | ||    |||||||||||     | ||| BLAST score 154.5
Target: 5' 2933 GTGTGGTGACCAAAAGTAAACCAGTGATG 2961/3903 3'
Query:  3' 0    GCGC-A-TGGTTTTCATT-----ATTAC 0 5'
w/GU            *|*| | |||||||||||     |*||| BLAST score 182.5
Target: 5' 2934 TGTGGTGACCAAAAGTAAACCAGTGATG 2961/3903 3'

Hit # 7 by hsa-miR-128a in the CDS
Query:  3' 0    TTTT-CT-CTGGCCAAGTGACACT 0 5'
w/o GU          |||| || |  | ||||||||||| BLAST score 165.5
Target: 5' 3011 AAAACGATGGGCAGTTCACTGTGA 3034/3903 3'
Query:  3' 0    TTTT-CT-CTGGCCAAGTGACACT 0 5'
w/GU            |||| || |* | ||||||||||| BLAST score 178
Target: 5' 3011 AAAACGATGGGCAGTTCACTGTGA 3034/3903 3'

Hit # 8 by hsa-miR-32 in the CDS
Query:  3' 0    CGTT-------GA------------ATCATTACAC-GTT---------AT 0 5'
w/o GU          || |       ||            ||||||||||  ||         || BLAST score 138.5
Target: 5' 3283 GCCAGTGATGTCTGGAGTTATGGAATAGTAATGTGGGAAGTTGTGTCTTA 3332/3903 3'
Query:  3' 0    CGTTGA------ATCATTACAC--------GT----TAT 0 5'
w/GU            | |**|      ||||||||||        **    ||* BLAST score 164.5
Target: 5' 3296 GGAGTTATGGAATAGTAATGTGGGAAGTTGTGTCTTATG 3334/3903 3'

Hit # 9 by hsa-miR-199a in the CDS
Query:  3' 0    TTG--TCCATCAGACTT--GTGACC 1 5'
w/o GU          |||  | ||||||||||  | |||| BLAST score 167
Target: 5' 3523 AACCCAAGTAGTCTGAAGACGCTGG 3547/3903 3'
Query:  3' 0    TTGT-C--------CATCAGACTT--GTGACC 1 5'
w/GU            *|*| |        ||||||||||  |*|||| BLAST score 180.5
Target: 5' 3516 GATACGTAACCCAAGTAGTCTGAAGACGCTGG 3547/3903 3'

Target # 40: >gi|30156021|ref|XM_295881.2| Homo sapiens LOC340963 (LOC340963), mRNA
CDS: 27 3938
Hit # 1 by hsa-miR-31 in the CDS
Query:  3' 0   GTC----GATACGGTCGTAGAACGG 0 5'
w/o GU         |||    | ||||||||||||| || BLAST score 169
Target: 5' 714 CAGGGGGCCATGCCAGCATCTT-CC 737/3938 3'
Query:  3' 1   TCGATACGGTCGTAGAACGG 0 5'
w/GU           *|| ||||||||||||| |* BLAST score 175
Target: 5' 719 GGCCATGCCAGCATCTTCCT 738/3938 3'

Hit # 2 by hsa-miR-149 in the CDS
Query:  3' 0   CCTCAC-------------------TTCTGTGCCTCGGT-CT 0 5'
w/o GU         ||||||                   |||||||||||||| || BLAST score 194
Target: 5' 888 GGAGTGCTGCACCTGCAGCCTGACAAAGACACGGAGCCAAGA 929/3938 3'
Query:  3' 0   CCTCAC-------------------TTCTGTGCCTCGGT-CT 0 5'
w/GU           ||||||                   |||||||||||||| || BLAST score 194
Target: 5' 888 GGAGTGCTGCACCTGCAGCCTGACAAAGACACGGAGCCAAGA 929/3938 3'

Hit # 3 by hsa-miR-212 in the CDS
Query:  3' 0    CCGG--------C----A------CTGACCTCTG------------ACA--A 1 5'
w/o GU          ||||        |    |      ||||||||||            |||  | BLAST score 144
Target: 5' 2316 GGCCCCCCACACGCGGCTTCCACAGACTGGAGACCTAGCAGGCTGCTGTCCT 2367/3938 3'
Query:  3' 0    CCGGCA-----CTGACCTCTG------------ACA--AT 0 5'
w/GU            |||* |     ||||||||||            |||  |* BLAST score 158
Target: 5' 2330 GGCT-TCCACAGACTGGAGACCTAGCAGGCTGCTGTCCTG 2368/3938 3'

Hit # 4 by hsa-miR-320 in the CDS
Query:  3' 0    AAG-CGGGA------GAGTTGGGTC----------------------------------------GAAA-A 0 5'
w/o GU          | | | |||      ||||||||||                                        |||| | BLAST score 149
Target: 5' 2359 TGCTGTCCTGCTGTCCTCAACCCAGGCAGGTCCACGCAGAGGCACCACAGGGGTTCTCTGTGCCACTTTAT 2429/3938 3'
Query:  3' 2    GCGGGA------GAGTTGGGTC----------------------------------------GAAA-A 0 5'
w/GU            *|*|||      ||||||||||                                        |||| | BLAST score 162.5
Target: 5' 2362 TGTCCTGCTGTCCTCAACCCAGGCAGGTCCACGCAGAGGCACCACAGGGGTTCTCTGTGCCACTTTAT 2429/3938 3'

Hit # 5 by hsa-miR-216 in the CDS
Query:  3' 0    GTGTC--------AACGGTCGAC-----------T-CT---A--AT 0 5'
w/o GU          || ||        ||||||||||           | ||   |  || BLAST score 139
Target: 5' 2989 CA-AGGATCTTCTTTGCCAGCTGCTTCCTGGTGAAGGATGCTGCTA 3033/3938 3'
Query:  3' 0    GTGTC-------AACGGTCGAC------------TCTA--AT 0 5'
w/GU            || *|       ||||||||||            *|||  |* BLAST score 163
Target: 5' 2989 CAAGGATCTTCTTTGCCAGCTGCTTCCTGGTGAAGGATGCTG 3030/3938 3'

Target # 41: >gi|27498519|ref|XM_212041.1| Homo sapiens LOC285842 (LOC285842), mRNA
CDS: 3061 3492
Hit # 1 by mmu-miR-187 in the 5'UTR
Query:  3' 2    CCGACGTTGTGTTC--TGT--GCT 0 5'
w/o GU          || |||||||||||   ||   || BLAST score 144.5
Target: 5' 2040 GGATGCAACACAAGTTTCATTTGA 2063/6592 3'
Query:  3' 0    GGCCGACGTTGTGTTC----TGTGCT 0 5'
w/GU            * || |||||||||||    |* *|| BLAST score 172.5
Target: 5' 2038 TGGGATGCAACACAAGTTTCATTTGA 2063/6592 3'

Hit # 2 by mmu-miR-200a in the 5'UTR
Query:  3' 0    TGT----AGCA----A--T---GGTCTGTCAC------------AAT 0 5'
w/o GU          |||    | ||    |  |   ||||||||||            | | BLAST score 142.5
Target: 5' 2130 ACAGGCCTGGTGCCCTCGAGGGCCAGACAGTGCAGAGGGGACTCTGA 2176/6592 3'
Query:  3' 0    TGT---AGCAAT-GGTCTGTCAC----------A-AT 0 5'
w/GU            ***   |||  * ||||||||||          | |* BLAST score 155.5
Target: 5' 2139 GTGCCCTCGAGGGCCAGACAGTGCAGAGGGGACTCTG 2175/6592 3'

Hit # 3 by hsa-miR-210 in the 5'UTR
Query:  3' 0    GTCGG---CGACAGTGTG------CGTGTC 0 5'
w/o GU          ||| |   ||||||||||      || | | BLAST score 152
Target: 5' 2340 CAGGCAGGGCTGTCACACCTGTCTGCCCCG 2369/6592 3'
Query:  3' 0    GTCGG---------------------CGACAGTGTG--------------------CGT---GTC 0 5'
w/GU            *||**                     ||||||||||                    |||   **| BLAST score 164
Target: 5' 2322 TAGTTAGGTGCCCAGGCACAGGCAGGGCTGTCACACCTGTCTGCCCCGGCCCCCGAGCATTTTGG 2386/6592 3'

Hit # 4 by mmu-miR-146 in the 5'UTR
Query:  3' 0    T-TTG----GGTACCTTAA---------GT-----C------AAGAGT 0 5'
w/o GU          | |||    ||||||||||         ||     |      |||| | BLAST score 165
Target: 5' 2640 AGAACTTCACCATGGAATTAGCTGATGACACTGGTGTCTTTCTTCTAA 2687/6592 3'
Query:  3' 0    TTTG----GGTACCTTAA------------GTCA-AGAG 1 5'
w/GU            *|||    ||||||||||            **|| |||* BLAST score 187.5
Target: 5' 2641 GAACTTCACCATGGAATTAGCTGATGACACTGGTGTCTT 2679/6592 3'

Hit # 5 by mmu-miR-151 in the 5'UTR
Query:  3' 0    TGGAG----------T---TCCTCGGAGT-----------CAGA-TC 0 5'
w/o GU          |  ||          |   ||||||||||           |||| || BLAST score 150.5
Target: 5' 2751 ATTTCTGGGCTTGGGAAAGAGGAGCCTCAAGCTGACACTGGTCTGAG 2797/6592 3'
Query:  3' 0    TGGAG-T------------TCCTCGGAGT-----------CAGA-TC 0 5'
w/GU            |**|| *            ||||||||||           |||| || BLAST score 175.5
Target: 5' 2751 ATTTCTGGGCTTGGGAAAGAGGAGCCTCAAGCTGACACTGGTCTGAG 2797/6592 3'

Hit # 6 by mmu-miR-151 in the 5'UTR
Query:  3' 0    T-GGAGTTCCTCGGAG----T------CAGATC 0 5'
w/o GU          | ||||||||||||||    |      |||||| BLAST score 190.5
Target: 5' 3012 AGCCTCAAGGAGCCTCTGCGACTCGGTGTCTAG 3044/6592 3'
Query:  3' 0    TGGAGTTCCTCGGAG---------T-CAGATC 0 5'
w/GU            *||||||||||||||         * |||||| BLAST score 199
Target: 5' 3013 GCCTCAAGGAGCCTCTGCGACTCGGTGTCTAG 3044/6592 3'

Hit # 7 by hsa-miR-222 in the 3'UTR
Query:  3' 1    TCT---GGGTCATCGG-----------------------TCTACATC--GA 0 5'
w/o GU          |||   ||||||||||                       ||| | ||  || BLAST score 161
Target: 5' 3824 AGACTCCCCAGTAGCCTCAGGACCCAACTCCCACAGGTCAGA-GAAGACCT 3873/6592 3'
Query:  3' 1    TCT---GGGTCATCGG------------------TCTA-------C---ATCG 1 5'
w/GU            |||   ||||||||||                  ||*|       |   |*|* BLAST score 172.5
Target: 5' 3824 AGACTCCCCAGTAGCCTCAGGACCCAACTCCCACAGGTCAGAGAAGACCTGGT 3876/6592 3'

Hit # 8 by hsa-miR-186 in the 3'UTR
Query:  3' 0    TTCGGGT-TTTCCTCTTAAG------------------------AAA 1 5'
w/o GU          ||  ||| ||||||||||||                        ||| BLAST score 166.5
Target: 5' 4538 AATTCCACAAAGGAGAATTCACACAAAGGTCTCGGACCAGCCAGTTT 4584/6592 3'
Query:  3' 0    TTCGGGT-TTTCCTCTTAAG------------------------AAA 1 5'
w/GU            || *||| ||||||||||||                        ||| BLAST score 179
Target: 5' 4538 AATTCCACAAAGGAGAATTCACACAAAGGTCTCGGACCAGCCAGTTT 4584/6592 3'

Hit # 9 by mmu-miR-204 in the 3'UTR
Query:  3' 0    GTCCGTATCCT--ACTGTT--------T---CCCTT 0 5'
w/o GU          |||||||||||  | ||||        |   ||||| BLAST score 187
Target: 5' 5528 CAGGCATAGGAAATCACAAGGGTATTGATTGGGGAA 5563/6592 3'
Query:  3' 0    GTCCGTATCCT--ACTGTTTCC--------CTT 0 5'
w/GU            |||||||||||  | ||||*||        |** BLAST score 196.5
Target: 5' 5528 CAGGCATAGGAAATCACAAGGGTATTGATTGGG 5560/6592 3'

Hit # 10 by mmu-miR-187 in the 3'UTR
Query:  3' 0    GGCC-GA----CGTTGTGTTC---TGTGCT 0 5'
w/o GU          || | ||    ||||||||||   | | || BLAST score 148.5
Target: 5' 5731 CCTGACTTCCCGCAACACAAGTGGAGA-GA 5759/6592 3'
Query:  3' 0    GGCCGA----CGTTGTGTTC---------TGTGCT 0 5'
w/GU            |*| ||    ||||||||||         | **|* BLAST score 172.5
Target: 5' 5732 CTGACTTCCCGCAACACAAGTGGAGAGAGAGGTGG 5766/6592 3'

Hit # 11 by hsa-miR-34 in the 3'UTR
Query:  3' 0    TGTTGGTCGATTCT----GTGACGGT 0 5'
w/o GU          |||||||||| |||    ||  |||| BLAST score 168.5
Target: 5' 6360 ACAACCAGCTCAGAGCGCCA--GCCA 6383/6592 3'
Query:  3' 0    TGTTGGTCGA-------------TTCTGTGAC--GGT 0 5'
w/GU            ||||||||||             |* ***|||  |** BLAST score 184
Target: 5' 6360 ACAACCAGCTCAGAGCGCCAGCCAGAGTGCTGTTCTG 6396/6592 3'

Target # 42: >gi|9845499|ref|NM_018891.1| Homo sapiens laminin, gamma 2 (LAMC2), transcript variant 2, mRNA
CDS: 90 3425
Hit # 1 by hsa-miR-124a in the CDS
Query:  3' 0   ACCGTAAGTG--GCGC---ACG--------G--AAT 1 5'
w/o GU         ||||||||||  || |   |||        |  ||| BLAST score 158
Target: 5' 272 TGGCATTCACTGCGAGAAGTGCAAGAATGGCTTTTA 307/4297 3'
Query:  3' 0   ACCGTAAGTGGCG-----CA---------CGGAATT 0 5'
w/GU           ||||||||||*||     ||         ||*|| | BLAST score 184.5
Target: 5' 272 TGGCATTCACTGCGAGAAGTGCAAGAATGGCTTTTA 307/4297 3'

Hit # 2 by hsa-miR-34 in the CDS
Query:  3' 0   TGT---------T--GGTCGA----TTCTGTGACGG 1 5'
w/o GU         |||         |  ||| ||    ||||||||||| BLAST score 160
Target: 5' 978 ACAGCTCCCTTGATGCCA-CTTGGCAAGACACTGCC 1012/4297 3'
Query:  3' 0   TGTT-GGT--CGA------------------TTCTGTGACGG--T 0 5'
w/GU           ||** *||  |||                  |||||||||||  * BLAST score 176.5
Target: 5' 971 ACGGATCACAGCTCCCTTGATGCCACTTGGCAAGACACTGCCTTG 1015/4297 3'

Hit # 3 by mmu-miR-150 in the CDS
Query:  3' 0    TGTGA---------------CCATGTTCCC----------------------A-ACC------CTCT 0 5'
w/o GU          ||| |               ||||||||||                      | |||      |||| BLAST score 163.5
Target: 5' 1229 ACAGTGTATATGTCCTGTTGGGTACAAGGGGCAATTCTGCCAGGATTGTGCTTCTGGCTACAAGAGA 1295/4297 3'
Query:  3' 0    TG---TGA-CCATGTTCCC----------------------A-ACC------CTCT 0 5'
w/GU            **   **| ||||||||||                      | |||      |||| BLAST score 173.5
Target: 5' 1240 GTCCTGTTGGGTACAAGGGGCAATTCTGCCAGGATTGTGCTTCTGGCTACAAGAGA 1295/4297 3'

Hit # 4 by hsa-miR-28 in the CDS
Query:  3' 1    A-GTTAT---C-------------T----------GACACTCGAG--------------GAA 0 5'
w/o GU          | |||||   |             |          ||||||||||              ||| BLAST score 149.5
Target: 5' 1530 TGCAATAACTGCCCTCCCGGGGTCACCGGTGCCCGCTGTGAGCTCTGTGCTGATGGCTACTT 1591/4297 3'
Query:  3' 0    GAGTTATC--TGACACTCGAGGAA 0 5'
w/GU            | |**|*   *||||||||||* | BLAST score 167.5
Target: 5' 1555 C-CGGTGCCCGCTGTGAGCTCTGT 1577/4297 3'

Hit # 5 by hsa-miR-221 in the CDS
Query:  3' 0    CT-------------TTGGGTCGTCTGTT-ACA--TCGA 0 5'
w/o GU          ||             |||||||||||||| |||  |||| BLAST score 198
Target: 5' 1767 GACCCATTGGCTCCCAACCCAGCAGACAAGTGTCGAGCT 1805/4297 3'
Query:  3' 0    CT-----TTGGGTCGTCTGTT-ACA--TCGA 0 5'
w/GU            |*     |||||||||||||| |||  |||| BLAST score 202
Target: 5' 1775 GGCTCCCAACCCAGCAGACAAGTGTCGAGCT 1805/4297 3'

Hit # 6 by hsa-miR-30c in the CDS
Query:  3' 0    CGACTCTC--ACATCCTACA--------------------AATGT 0 5'
w/o GU          ||| ||||  ||||||||||                    || || BLAST score 178
Target: 5' 1825 GCTCAGAGCCTGTAGGATGTCGAAGTGATGGCACCTGTGTTTGCA 1869/4297 3'
Query:  3' 0    CGACTCTC--ACATCCTACA--------------------AATGT 0 5'
w/GU            ||| ||||  ||||||||||                    ||*|| BLAST score 190.5
Target: 5' 1825 GCTCAGAGCCTGTAGGATGTCGAAGTGATGGCACCTGTGTTTGCA 1869/4297 3'

Hit # 7 by mmu-miR-29b in the CDS
Query:  3' 0    TTGT-------------------GACTAAAGTTT---------ACCACGA--T 0 5'
w/o GU          | ||                   |||||||||||         ||||| |  | BLAST score 166
Target: 5' 1963 AGCAGCTTCAGAGAATGGAGGCCCTGATTTCAAAGGCTCAGGGTGGTGATGGA 2015/4297 3'
Query:  3' 0    TTGT------GACTAAAGTTT---------ACCACGAT 0 5'
w/GU            ||**      |||||||||||         ||||| |* BLAST score 194
Target: 5' 1976 AATGGAGGCCCTGATTTCAAAGGCTCAGGGTGGTGATG 2013/4297 3'

Hit # 8 by hsa-miR-142* in the CDS
Query:  3' 1    G---GTATTTCA-T----------CCTTTGTGAT-GT 0 5'
w/o GU          |   || ||||| |          |||||||||| || BLAST score 168
Target: 5' 2277 CTGGCAGAAAGTGAAGCTTCCTTGGGAAACACTAACA 2313/4297 3'
Query:  3' 0    AG------------------GTATTTCAT-----------CCTTTGTGAT-GT 0 5'
w/GU            ||                  || |||||*           |||||||||| || BLAST score 178.5
Target: 5' 2261 TCAGATGCAGCTGAGCCTGGCAGAAAGTGAAGCTTCCTTGGGAAACACTAACA 2313/4297 3'

Hit # 9 by hsa-miR-105 in the 3'UTR
Query:  3' 0    T--GTCCTCAGACTC-G------TA---AACT 0 5'
w/o GU          |  |||||||||||| |      ||   |||| BLAST score 162
Target: 5' 4163 ACTCAGGAGTCTGAGGCAGGAGAATCGCTTGA 4194/4297 3'
Query:  3' 0    T--GTCCTCAGACTC----------GTAAACT 0 5'
w/GU            |  ||||||||||||          |* |||| BLAST score 165.5
Target: 5' 4163 ACTCAGGAGTCTGAGGCAGGAGAATCGCTTGA 4194/4297 3'

Target # 43: >gi|5174632|ref|NM_006071.1| Homo sapiens polycystic kidney disease (polycystin) and REJ (sperm receptor for egg jelly homolog, sea urchin)-like (PKDREJ), mRNA
CDS: 1 6762
Hit # 1 by mmu-miR-135 in the CDS
Query:  3' 0    AAGTGTATCCTT--A--T---------------TTTTCGGTAT 0 5'
w/o GU          |||  ||| ||   |  |               |||||||||| BLAST score 156.5
Target: 5' 1329 TTCTGATAAGAGGGTCCACGTGCTCCAAGGACCAAAAGCCATA 1371/7660 3'
Query:  3' 0    AAGTGTA-----TCCTTATTTTTCGGTAT 0 5'
w/GU            | |||*|     | |*|  |||||||||| BLAST score 179.5
Target: 5' 1343 TCCACGTGCTCCAAGGACCAAAAGCCATA 1371/7660 3'

Hit # 2 by hsa-miR-19b in the CDS
Query:  3' 0    A---GT-CA---A-AACGTA-----------C-----CTAAACGTGT 0 5'
w/o GU          |   || ||   | || |||           |     |||||||||| BLAST score 157.5
Target: 5' 1767 TAAGCACGTCCCTCTTACATATAAAATAATTGTTTCTGATTTGCACA 1813/7660 3'
Query:  3' 0    AGTCAA---------AACGTAC-CTAAACGTGT 0 5'
w/GU            |*|  |         |||* |  |||||||||| BLAST score 159
Target: 5' 1781 TTACATATAAAATAATTGTTTCTGATTTGCACA 1813/7660 3'

Hit # 3 by mmu-miR-200a in the CDS
Query:  3' 0    TGTAGCAATGG-------------------TCTGTCACAA-T 0 5'
w/o GU          |||  | | ||                   |||||||||| | BLAST score 138
Target: 5' 2001 ACAG-GCTCCCACTGACAAAAATTCATCAAAGACAGTGTTGA 2041/7660 3'
Query:  3' 0    TGT---AG-----C-------AA-TGG--TCTGTCACAAT 0 5'
w/GU            |||   ||     |       || |*|  ||||||||||* BLAST score 171
Target: 5' 2001 ACAGGCTCCCACTGACAAAAATTCATCAAAGACAGTGTTG 2040/7660 3'

Hit # 4 by hsa-miR-17-5p in the CDS
Query:  3' 0    TGATGGA----C--GT--------------GACATTCGTGAAAC 0 5'
w/o GU          || ||||    |  ||              |||||||||||||| BLAST score 187.5
Target: 5' 2205 AC-ACCTCATCGATCAGTCTTTCCTTCTTCCTGTAAGCACTTTG 2247/7660 3'
Query:  3' 0    TGATGGACGT---------------------GACATTCGTGAAAC 0 5'
w/GU            || |||| ||                     |||||||||||||| BLAST score 184.5
Target: 5' 2205 AC-ACCT-CATCGATCAGTCTTTCCTTCTTCCTGTAAGCACTTTG 2247/7660 3'

Hit # 5 by hsa-miR-124a in the CDS
Query:  3' 1    CCGTAAGTGG----------------------------C--GCAC--GGAATT 0 5'
w/o GU          ||||||||||                            |   |||  || ||| BLAST score 145
Target: 5' 3451 GGCATTCACCTGCATACCCACTATGTGATGGCCAAGGTGATTGTGATCCCTAA 3503/7660 3'
Query:  3' 1    CCGTAAGTGG--------------CGC-A-CGG-------AAT-T 0 5'
w/GU            ||||||||||              |*| | |||       ||* * BLAST score 158
Target: 5' 3451 GGCATTCACCTGCATACCCACTATGTGATGGCCAAGGTGATTGTG 3495/7660 3'

Hit # 6 by hsa-miR-31 in the CDS
Query:  3' 0    GTCGATAC-------GGTCGTAGAA-----CG 1 5'
w/o GU          |||  |||       ||||||||||     || BLAST score 153
Target: 5' 3618 CAGGGATGAAATGGACCAGCATCTTCGGGGGC 3649/7660 3'
Query:  3' 0    GTCGATAC-------GGTCGTAGAA---------------CGG 0 5'
w/GU            |||  |||       ||||||||||               |** BLAST score 158
Target: 5' 3618 CAGGGATGAAATGGACCAGCATCTTCGGGGGCATGTGATAGTT 3660/7660 3'

Hit # 7 by hsa-miR-182 in the CDS
Query:  3' 0    ACAC--TCAAGATGGT--A--AC--GG-----T-TT 0 5'
w/o GU          ||||  ||||||||||  |  ||  ||     | || BLAST score 165
Target: 5' 3651 TGTGATAGTTCTACCAGATAATGATCCTTATGATAA 3686/7660 3'
Query:  3' 0    ACAC--TCAAGATGGT--A--AC----GGT-TT 0 5'
w/GU            ||||  ||||||||||  |  ||    **| *| BLAST score 174.5
Target: 5' 3651 TGTGATAGTTCTACCAGATAATGATCCTTATGA 3683/7660 3'

Hit # 8 by mmu-miR-203 in the CDS
Query:  3' 0    AGATCACCA-GG--A----T---TTGTAAAGTG 0 5'
w/o GU          |||  || | ||  |    |   |||||||||| BLAST score 155.5
Target: 5' 4000 TCTGTTGATACCACTTTGGACAGAACATTTCAC 4032/7660 3'
Query:  3' 0    AGATCACCA-GG--A--T-----TTGTAAAGTG 0 5'
w/GU            |||* || | ||  |  *     |||||||||| BLAST score 168
Target: 5' 4000 TCTGTTGATACCACTTTGGACAGAACATTTCAC 4032/7660 3'

Hit # 9 by mmu-miR-204 in the CDS
Query:  3' 0    GTCCGTATCCT-AC-TGTTT--------------------CCC--TT 0 5'
w/o GU          |||||||||||  | |||||                    |||  || BLAST score 173.5
Target: 5' 4563 CAGGCATAGGAAAGCACAAATCAAGACCCCGGAGACCCTCGGGCCAA 4609/7660 3'
Query:  3' 0    GTCCGTATCCT-AC-TGTTT----C-----CCTT 0 5'
w/GU            |||||||||||  | |||||    |     |||* BLAST score 180
Target: 5' 4563 CAGGCATAGGAAAGCACAAATCAAGACCCCGGAG 4596/7660 3'

Hit # 10 by hsa-miR-186 in the CDS
Query:  3' 0    T-TC-------GGGTTTTCCT--------------------------CTTA--A-GA---AAC 0 5'
w/o GU          | ||       ||||||||||                          | ||  | ||   ||| BLAST score 149.5
Target: 5' 4659 ACAGCACCCTTCCCAAAAGGATCTCCAGCAGCTTAAGAAAAAGCCCCGGATCGTCCTACCTTG 4721/7660 3'
Query:  3' 0    T-TC-------GGGTTTTCCT--------------------------CTTA--A-GA---AAC 0 5'
w/GU            | ||       ||||||||||                          |*||  | ||   ||| BLAST score 162
Target: 5' 4659 ACAGCACCCTTCCCAAAAGGATCTCCAGCAGCTTAAGAAAAAGCCCCGGATCGTCCTACCTTG 4721/7660 3'

Hit # 11 by mmu-miR-134 in the CDS
Query:  3' 0    A-G-----GGA--G-ACCAGTTGGT-CAGTGT 0 5'
w/o GU          | |     |||  | |||||||||| || | | BLAST score 144
Target: 5' 4930 TGCAAAAACCTTTCATGGTCAACCAAGT-ATA 4960/7660 3'
Query:  3' 1    GGGAG-ACCAGTTGGTCAGTGT 0 5'
w/GU            |**|| ||||||||||  *|*| BLAST score 176.5
Target: 5' 4939 CTTTCATGGTCAACCAAGTATA 4960/7660 3'

Hit # 12 by hsa-miR-205 in the CDS
Query:  3' 0    GTCT---GAG------G------CC----ACCTTACTTC--CT 0 5'
w/o GU          ||||   | |      |      ||    ||||||||||  || BLAST score 157
Target: 5' 5492 CAGAAGACACAAAAAACTATTCTGGCTTTTGGAATGAAGTTGA 5534/7660 3'
Query:  3' 0    GTCT---------------GAGGCC----ACCTTACTTC--CT 0 5'
w/GU            ||||               *||*||    ||||||||||  || BLAST score 185.5
Target: 5' 5492 CAGAAGACACAAAAAACTATTCTGGCTTTTGGAATGAAGTTGA 5534/7660 3'

Hit # 13 by hsa-miR-142 in the 3'UTR
Query:  3' 0    C--ATC---ACGAAAGATGAAATAC 0 5'
w/o GU          |  |||   |||||||||||  ||| BLAST score 150.5
Target: 5' 6846 GCCTAGTCATGCTTTCTACT-CATG 6869/7660 3'
Query:  3' 0    CATC--------ACGAAAGATGA-AATA 1 5'
w/GU            ||*|        |||||||||||  |*| BLAST score 157
Target: 5' 6843 GTGGCCTAGTCATGCTTTCTACTCATGT 6870/7660 3'

Hit # 14 by hsa-miR-145 in the 3'UTR
Query:  3' 0    T-T----CCCTAAGGACC---CT---------TTTGACCT 1 5'
w/o GU          | |    |||||||||||   ||         | |  ||| BLAST score 152
Target: 5' 6981 ACAGTGTGGGATTCCTGGACTGATTTCCCTTTAGAGGGGA 7020/7660 3'
Query:  3' 0    TT---CCCTAAGGACC------------------CTTTTGA--C-CTG 0 5'
w/GU            |*   |||||||||||                  |**|**|  | ||| BLAST score 196
Target: 5' 6983 AGTGTGGGATTCCTGGACTGATTTCCCTTTAGAGGGGAGTTATGTGAC 7030/7660 3'

Target # 44: >gi|37545679|ref|XM_038864.4| Homo sapiens KIAA1632 protein (KIAA1632), mRNA
CDS: 1 7839
Hit # 1 by hsa-miR-216 in the CDS
Query:  3' 0   GTGTCAACGGTCGACTCTAA 1 5'
w/o GU         | |||||||||||||| ||| BLAST score 175
Target: 5' 749 CCCAGTTGCCAGCTGAAATT 768/9799 3'
Query:  3' 0   GT----GTCAACGGTCGACTCTAAT 0 5'
w/GU           *|    |||||||||||||| |||* BLAST score 187.5
Target: 5' 745 TATCCCCAGTTGCCAGCTGAAATTG 769/9799 3'

Hit # 2 by hsa-miR-214 in the CDS
Query:  3' 1    ACG-----------GACAGACACG--GACGACA 0 5'
w/o GU          |||           ||||||||||   |||||| BLAST score 165
Target: 5' 2228 TGCCCTTTGGGACTCTGTCTGTGCAAATGCTGT 2260/9799 3'
Query:  3' 0    GAC---G-GACAGACACG--GACGACA 0 5'
w/GU            *||   | ||||||||||   |||||| BLAST score 170.5
Target: 5' 2234 TTGGGACTCTGTCTGTGCAAATGCTGT 2260/9799 3'

Hit # 3 by mmu-miR-199-as in the CDS
Query:  3' 0    TTGGTTACAC--G--TCTGATG-----------ACA 1 5'
w/o GU          ||||||||||  |  ||||| |           ||| BLAST score 166
Target: 5' 2460 AACCAATGTGGACGAAGACTTCATAAAAATTATTGT 2495/9799 3'
Query:  3' 0    TTGGTTACAC-------------G--TCTGATGAC---AT 0 5'
w/GU            ||||||||||             *  | |*||*||   |* BLAST score 174.5
Target: 5' 2460 AACCAATGTGGACGAAGACTTCATAAAAATTATTGTTCTG 2499/9799 3'

Hit # 4 by hsa-miR-185 in the CDS
Query:  3' 0    CTTGACGGAAA--------------G-AGAGGT 0 5'
w/o GU          |||||||||||              | ||| || BLAST score 144
Target: 5' 2674 GAACTGCCTTTGTATCTTTGGCAACCTTCTGCA 2706/9799 3'
Query:  3' 0    CTTGACGGAAA-G-AGAGGT 0 5'
w/GU            ||||||||||| * |||*** BLAST score 163
Target: 5' 2674 GAACTGCCTTTGTATCTTTG 2693/9799 3'

Hit # 5 by mmu-miR-9* in the CDS
Query:  3' 1    GAAAGC--CAATAGATCGAAAT 0 5'
w/o GU          | || |  |||||||||| ||| BLAST score 153.5
Target: 5' 3153 CATTGGCTGTTATCTAGCCTTA 3174/9799 3'
Query:  3' 0    TGAA-----AGC---CAATAGATCGAAAT 0 5'
w/GU            *| |     |*|   |||||||||| ||| BLAST score 165
Target: 5' 3146 GCATGCCCATTGGCTGTTATCTAGCCTTA 3174/9799 3'

Hit # 6 by hsa-miR-17-5p in the CDS
Query:  3' 0    TGATG------GA--------CGT------------------GACATTCGTGA----------------------AAC 0 5'
w/o GU          || ||      ||        |||                  |||||||||||                      ||| BLAST score 168.5
Target: 5' 3452 ACAACGTGAAGCTTCTCAACAGCATGATCCAGGCACACATATCTGTAAGCACTCAGCCCAATGAAGTGGGCCCCGTTG 3529/9799 3'
Query:  3' 0    TGATGGA-----CGT------------------GACATTCGTGA----------------------AAC 0 5'
w/GU            *|| *||     |||                  |||||||||||                      ||| BLAST score 175
Target: 5' 3462 GCT-TCTCAACAGCATGATCCAGGCACACATATCTGTAAGCACTCAGCCCAATGAAGTGGGCCCCGTTG 3529/9799 3'

Hit # 7 by hsa-miR-31 in the CDS
Query:  3' 0    GTC-GA---TA--CGGTCGTAGA----ACGG 0 5'
w/o GU          ||| ||   ||  ||||||||||    | || BLAST score 160.5
Target: 5' 3550 CAGGCTCTCATAAGCCAGCATCTCTGGTACC 3580/9799 3'
Query:  3' 0    GTC-GA---TA--CGGTCGTAGA-ACGG 0 5'
w/GU            ||| ||   ||  |||||||||| || * BLAST score 162
Target: 5' 3550 CAGGCTCTCATAAGCCAGCATCTCTGGT 3577/9799 3'

Hit # 8 by mmu-miR-26b in the CDS
Query:  3' 0    TTGGATAGGA---------CTTAATGAA--C-TT 0 5'
w/o GU          ||||||||||         | |  ||||  | || BLAST score 152.5
Target: 5' 3587 AACCTATCCTCTTCCTCATGGACCACTTGTGTAA 3620/9799 3'
Query:  3' 0    TTGGATAGGA---------CTTAATGAACTT 0 5'
w/GU            ||||||||||         |*|  ||||| * BLAST score 170
Target: 5' 3587 AACCTATCCTCTTCCTCATGGACCACTTGTG 3617/9799 3'

Hit # 9 by hsa-miR-196 in the CDS
Query:  3' 0    GGTTGTTGTACTTTGATGGA 1 5'
w/o GU          |||||||||| | | | ||| BLAST score 150
Target: 5' 3669 CCAACAACATAAGAATGCCT 3688/9799 3'
Query:  3' 0    GGTTGTTGTA------C----TTTGATGG--AT 0 5'
w/GU            ||||||||||      |    ****||||  |* BLAST score 180
Target: 5' 3669 CCAACAACATAAGAATGCCTTGGGTTACCACTG 3701/9799 3'

Hit # 10 by hsa-miR-133a in the CDS
Query:  3' 1    GTCGA--CC-------AACTTCCCCT------------------------------GGTT 0 5'
w/o GU          |||||  ||       ||||||||||                              |||| BLAST score 166.5
Target: 5' 3847 CAGCTCCGGAGAGTTATTGAAGGGGAATTGGTGATAAACTCTGCTTTCACCCCTGACCAA 3906/9799 3'
Query:  3' 1    GTCGA--CC-------AACTTCCCCT-GGTT 0 5'
w/GU            |||||  ||       |||||||||| **** BLAST score 181
Target: 5' 3847 CAGCTCCGGAGAGTTATTGAAGGGGAATTGG 3877/9799 3'

Hit # 11 by mmu-miR-129b in the CDS
Query:  3' 0    TT-G--------TTCGGGTCTGG--CGTTTTTC 0 5'
w/o GU          || |        |||||||||||  ||   ||| BLAST score 147
Target: 5' 3905 AAGCTCTGAAGAAAGCCCAGACCCAGC-TGAAG 3936/9799 3'
Query:  3' 0    TTG--------TTCGGGTCTGGCGTT--TTTC 0 5'
w/GU            |*|        ||||||||||| ||*  *||| BLAST score 180.5
Target: 5' 3906 AGCTCTGAAGAAAGCCCAGACC-CAGCTGAAG 3936/9799 3'

Hit # 12 by hsa-miR-188 in the CDS
Query:  3' 0    TGG-------G-----AGGTGGTACG--------------------------------------TTCCCTAC 0 5'
w/o GU          |||       |     ||||||||||                                      ||||| || BLAST score 158.5
Target: 5' 4168 ACCGAGGTGGCTGACTTCCACCATGCTGCAAGCAAGGCCCTCCGTGTTCCAGCAGAGGGCAGTGAAGGGCTG 4239/9799 3'
Query:  3' 0    TG---GGAGGTGGTACG----------------------------TTCCC--TAC 0 5'
w/GU            *|   |*||||||||||                            *||||  *|| BLAST score 179.5
Target: 5' 4177 GCTGACTTCCACCATGCTGCAAGCAAGGCCCTCCGTGTTCCAGCAGAGGGCAGTG 4231/9799 3'

Hit # 13 by hsa-miR-212 in the CDS
Query:  3' 0    C-CG------GCACTGA----CCTCTGACAA 1 5'
w/o GU          | ||      | ||| |    |||||||||| BLAST score 145.5
Target: 5' 4458 GCGCATCTATCATGAGTTTCAGGAGACTGTT 4488/9799 3'
Query:  3' 2    GGCACT-GA---CCTCTGACAAT 0 5'
w/GU            *| ||| *|   ||||||||||* BLAST score 159.5
Target: 5' 4467 TCATGAGTTTCAGGAGACTGTTG 4489/9799 3'

Hit # 14 by hsa-miR-9 in the CDS
Query:  3' 0    AGTATGTCGATCTATTGGTT-------TC 1 5'
w/o GU          ||||||||||  || | |||       || BLAST score 158.5
Target: 5' 5327 TCATACAGCTGTATGAGCAAGTGGTGAAG 5355/9799 3'
Query:  3' 0    AGTATGTCGATCTATTGGTTT-CT 0 5'
w/GU            ||||||||||* ||*| |||* |* BLAST score 196.5
Target: 5' 5327 TCATACAGCTGTATGAGCAAGTGG 5350/9799 3'

Hit # 15 by hsa-miR-17-5p in the CDS
Query:  3' 0    TGATGG-ACGT-------GACATTCGTGA----AA 1 5'
w/o GU          | | || |  |       |||||||||||    || BLAST score 144
Target: 5' 5524 A-TGCCATTTAATCTTTTCTGTAAGCACTGGACTT 5557/9799 3'
Query:  3' 0    TGA-T-GGACGTGACATTCGTGA----AA 1 5'
w/GU            |*| | *|| * |||||||||||    || BLAST score 178
Target: 5' 5529 ATTTAATCTTTTCTGTAAGCACTGGACTT 5557/9799 3'

Hit # 16 by mmu-miR-9* in the CDS
Query:  3' 0    TGA------------AAGCCAATAG-----ATC-GAAAT 0 5'
w/o GU          |||            ||||||||||     | | ||||| BLAST score 164.5
Target: 5' 5795 ACTTTTTTTATAAGCTTCGGTTATCCAAGATGGACTTTA 5833/9799 3'
Query:  3' 0    TGA------------AAGCCAATAG-----ATC-GAAAT 0 5'
w/GU            |||            ||||||||||     |*| ||||| BLAST score 177
Target: 5' 5795 ACTTTTTTTATAAGCTTCGGTTATCCAAGATGGACTTTA 5833/9799 3'

Hit # 17 by hsa-miR-130a in the CDS
Query:  3' 0    C-GGGAAAATTGTAACGT--GAC 0 5'
w/o GU          | |||||||||||  |||  ||| BLAST score 153.5
Target: 5' 7017 GCCCCTTTTAACA--GCAGCCTG 7037/9799 3'
Query:  3' 0    C-GGGAAAATTGTAACG-T-GAC 0 5'
w/GU            | |||||||||||  || * ||| BLAST score 145.5
Target: 5' 7017 GCCCCTTTTAACA--GCAGCCTG 7037/9799 3'

Hit # 18 by hsa-miR-320 in the CDS
Query:  3' 0    AAG-------CGGGAGAGTT-------------------GGGT-----C-----GAA----AA 0 5'
w/o GU          |||       ||||||||||                   ||||     |     |||    || BLAST score 170
Target: 5' 7099 TTCAAAGAAAGCCCTCTCAATCAGAATTCAGGATGGGGACCCATTCTGGTATCCCTTCAGGTT 7161/9799 3'
Query:  3' 0    AAG-------CGGGAGAGTT------------------------GGGTC-----GAA----AA 0 5'
w/GU            |||       ||||||||||                        *|**|     |||    || BLAST score 178
Target: 5' 7099 TTCAAAGAAAGCCCTCTCAATCAGAATTCAGGATGGGGACCCATTCTGGTATCCCTTCAGGTT 7161/9799 3'

Hit # 19 by hsa-miR-137 in the CDS
Query:  3' 0    GA--TGCGCATA-------------------AGAATTCGTT----------------AT 0 5'
w/o GU          ||  | | | ||                   ||||||||||                || BLAST score 134
Target: 5' 7262 CTTTAAG-GAATGAAATGAAAGTGCTGCTCATCTTAAGCAAGTGGCTGGAACAGGTGTA 7319/9799 3'
Query:  3' 0    GAT-----GC---G----CAT-A-----AGAATTCGTT-AT 0 5'
w/GU            *||     *|   *    ||* |     |||||||||| |* BLAST score 162.5
Target: 5' 7264 TTAAGGAATGAAATGAAAGTGCTGCTCATCTTAAGCAAGTG 7304/9799 3'

Hit # 20 by hsa-miR-139 in the 3'UTR
Query:  3' 0    TCTGTG---C------ACGTGACATCT 0 5'
w/o GU          ||  ||   |      ||||||||||| BLAST score 134.5
Target: 5' 7905 AGTAACTTTGCTCAATTGCACTGTAGA 7931/9799 3'
Query:  3' 0    TCTGTGC--------------ACGTGACATCT 0 5'
w/GU            * ||| |              ||||||||||| BLAST score 140
Target: 5' 7900 GCACAAGTAACTTTGCTCAATTGCACTGTAGA 7931/9799 3'

Hit # 21 by hsa-miR-216 in the 3'UTR
Query:  3' 0    GTGTCAACGG---------TC----GA-----CT------CTA 2 5'
w/o GU          ||||||||||         ||    ||     ||      ||| BLAST score 146
Target: 5' 8120 CACAGTTGCCGAATGTCCCAGTCATCTCACAAGACCTCCAGAT 8162/9799 3'
Query:  3' 0    GTGTCAACGG---------TC----GA-----CT------CTAAT 0 5'
w/GU            ||||||||||         ||    ||     ||      ||| * BLAST score 153.5
Target: 5' 8120 CACAGTTGCCGAATGTCCCAGTCATCTCACAAGACCTCCAGATGG 8164/9799 3'

Hit # 22 by hsa-miR-214 in the 3'UTR
Query:  3' 0    GACGGACAGAC--------A-CG---GA-CGACA 0 5'
w/o GU          |||||||||||        | ||   || || || BLAST score 159
Target: 5' 8490 CTGCCTGTCTGAATCAGGATGGCAAGCTGGCAGT 8523/9799 3'
Query:  3' 0    GACGGACAGAC----------------A----CGGA-------CG-ACA 0 5'
w/GU            |||||||||||                |    |*||       || ||| BLAST score 164
Target: 5' 8490 CTGCCTGTCTGAATCAGGATGGCAAGCTGGCAGTCTGGGAGGAGCATGT 8538/9799 3'

Target # 45: >gi|31657133|ref|NM_002031.2| Homo sapiens fyn-related kinase (FRK), mRNA
CDS: 448 1965
Hit # 1 by hsa-miR-130a in the 5'UTR
Query:  3' 0   CGGGAAAATT---GTAACGT---GAC 0 5'
w/o GU         ||||||||||    |||  |    || BLAST score 131
Target: 5' 120 GCCCTTTTAATTTTATTTTATTTTTG 145/2864 3'
Query:  3' 0   CGGGAAAATT---GTAACGT---GAC 0 5'
w/GU           ||||||||||   *||| *|   *|| BLAST score 168.5
Target: 5' 120 GCCCTTTTAATTTTATTTTATTTTTG 145/2864 3'

Hit # 2 by hsa-miR-137 in the 5'UTR
Query:  3' 0   GATG-----CG-----------------------CA------TAAGAATTCGT-TAT 0 5'
w/o GU         |||      ||                       ||      ||||||||||| ||| BLAST score 158
Target: 5' 111 CTAAATAAAGCCCTTTTAATTTTATTTTATTTTTGTTGTGGGATTCTTAAGCAGATA 167/2864 3'
Query:  3' 0   GATGCGCA---TAAGAATTCGT-TAT 0 5'
w/GU           *|** *||   ||||||||||| ||| BLAST score 183.5
Target: 5' 143 TTGT-TGTGGGATTCTTAAGCAGATA 167/2864 3'

Hit # 3 by hsa-miR-19b in the 5'UTR
Query:  3' 0   AGTCAAAACGTA-CCTAAACGTG 1 5'
w/o GU         |||||||||| | ||  | |||| BLAST score 161.5
Target: 5' 212 TCAGTTTTGCCTCGGGGTAGCAC 234/2864 3'
Query:  3' 0   AGTCAAAACGTA-CCTAAACGTG 1 5'
w/GU           |||||||||| | ||* | |||| BLAST score 174
Target: 5' 212 TCAGTTTTGCCTCGGGGTAGCAC 234/2864 3'

Hit # 4 by hsa-miR-320 in the 5'UTR
Query:  3' 0   A-AGCGG--------GA--GA-GTTGGGTCGA-----------------------AAA 0 5'
w/o GU         | || ||        ||  || ||||||||||                       ||| BLAST score 160
Target: 5' 263 TCTCTCCAGGTAGGACTTGCTGCAACCCAGCTGCTGGACTGATCTGAAACGGGACTTT 320/2864 3'
Query:  3' 0   A-AGCGG--------GAG--A-GTTGGGTCGA-----------------------AAA 0 5'
w/GU           | || ||        ||*  | ||||||||||                       ||| BLAST score 160
Target: 5' 263 TCTCTCCAGGTAGGACTTGCTGCAACCCAGCTGCTGGACTGATCTGAAACGGGACTTT 320/2864 3'

Hit # 5 by hsa-miR-198 in the CDS
Query:  3' 0   GGATAGAGGGGA-GACCTGG 0 5'
w/o GU         ||||||||||||  | | || BLAST score 144
Target: 5' 488 CCTATCTCCCCTGTTTGTCC 507/2864 3'
Query:  3' 0   GGATAGAGGGGA--GAC--------------------------CTGG 0 5'
w/GU           ||||||||||||  *||                          ||** BLAST score 160
Target: 5' 488 CCTATCTCCCCTGTTTGTCCACGGAGGCAGACAAGTCAACCGTGATT 534/2864 3'

Hit # 6 by hsa-miR-200b in the CDS
Query:  3' 0   GTA--G----------------------TAATGGTCCG-----------TCATAATCTC 0 5'
w/o GU         |||  |                      ||||||||||           || | | ||| BLAST score 161
Target: 5' 574 CATGGCCACTACTTTGTGGCTTTGTTTGATTACCAGGCTCGGACTGCTGAGGACTTGAG 632/2864 3'
Query:  3' 0   GTAG--TAATGGTCCG--TC--ATAATCTC 0 5'
w/GU           **|*  ||||||||||  *|  |* |* *| BLAST score 188
Target: 5' 596 TGTTTGATTACCAGGCTCGGACTGCTGAGG 625/2864 3'

Hit # 7 by hsa-miR-33 in the CDS
Query:  3' 0   GTTA--CGTTGATGTTACG-T 1 5'
w/o GU         || |  |||||||||| || | BLAST score 137.5
Target: 5' 723 CAGTCAGCAACTACAAGGCTA 743/2864 3'
Query:  3' 0   GTTA--CGTTGATGTTAC-GTG 0 5'
w/GU           ||*|  |||||||||| | *|* BLAST score 160
Target: 5' 723 CAGTCAGCAACTACAAGGCTAT 744/2864 3'

Hit # 8 by hsa-miR-140as in the CDS
Query:  3' 1   GGCACCAAGA-------------------------------TG-GGACACCAT 0 5'
w/o GU         ||||||||||                               ||  || |  || BLAST score 128
Target: 5' 790 CCGTGGTTCTTTGGAGCAATCGGAAGATCAGATGCAGAGAAACAACTATTATA 842/2864 3'
Query:  3' 1   GGCACCAAGA-----TG--GGAC----A--CCAT 0 5'
w/GU           ||||||||||     *|  *| |    |  | |* BLAST score 146.5
Target: 5' 790 CCGTGGTTCTTTGGAGCAATCGGAAGATCAGATG 823/2864 3'

Hit # 9 by hsa-miR-128a in the CDS
Query:  3' 0   TTTTC-TCTGGCCAAG--------------TGACACT 0 5'
w/o GU         ||||  ||||||||||              |  |||| BLAST score 159
Target: 5' 848 AAAACAAGACCGGTTCCTTTCTAATCAGAGAAAGTGA 884/2864 3'
Query:  3' 0   TTTTC-TCTGGCCAAG--------------TGACACT 0 5'
w/GU           ||||  ||||||||||              |  |||| BLAST score 159
Target: 5' 848 AAAACAAGACCGGTTCCTTTCTAATCAGAGAAAGTGA 884/2864 3'

Hit # 10 by hsa-miR-186 in the CDS
Query:  3' 0   TTCGGGTTTTCCTCTTAAGA----AA--C 0 5'
w/o GU         ||||| ||||||||||||||    ||  | BLAST score 198.5
Target: 5' 885 AAGCCAAAAAGGAGAATTCTCTCTTTCAG 913/2864 3'
Query:  3' 0   TTCGGGTTTTCCTCTTAAGA----AA--C 0 5'
w/GU           ||||| ||||||||||||||    ||  | BLAST score 198.5
Target: 5' 885 AAGCCAAAAAGGAGAATTCTCTCTTTCAG 913/2864 3'

Hit # 11 by hsa-miR-142* in the CDS
Query:  3' 1   GGTATTTCATC--------------C--------------------TTTGTGATGT 0 5'
w/o GU         ||| |||| ||              |                    |||||||||| BLAST score 162
Target: 5' 888 CCAAAAAGGAGAATTCTCTCTTTCAGTTTTAGATGGAGCAGTTGTAAAACACTACA 943/2864 3'
Query:  3' 0   AGGT--ATTTCATC--C--TTTGTGATGT 0 5'
w/GU           |**|  |**|| ||  |  |||||||||| BLAST score 190.5
Target: 5' 915 TTTAGATGGAGCAGTTGTAAAACACTACA 943/2864 3'

Hit # 12 by mmu-miR-201 in the CDS
Query:  3' 0    T-CTT--G--------------TTACGGAATG--ACTCAT 0 5'
w/o GU          | |||  |              ||||||||||  || ||| BLAST score 150
Target: 5' 1718 ATGAAATCATTACTTATGGCAAAATGCCTTACAGTG-GTA 1756/2864 3'
Query:  3' 0    TCTTG--TTACGGAATGAC-TCAT 0 5'
w/GU            | **|  |||||||||| | *||| BLAST score 167.5
Target: 5' 1733 ATGGCAAAATGCCTTACAGTGGTA 1756/2864 3'

Hit # 13 by hsa-miR-199a in the CDS/3'UTR
Query:  3' 0    TTGTCC-A------TCAG----------------------ACTTGTGACC-C 0 5'
w/o GU          |||||  |      | ||                      |||||||||| | BLAST score 148
Target: 5' 1923 AACAGACTCTTCATATTCAGATGCAAATAACTTCATAAGATGAACACTGGAG 1974/2864 3'
Query:  3' 0    TTGTCC-------ATCAG----------------------ACTTGTGACC-C 0 5'
w/GU            |||||        || ||                      |||||||||| | BLAST score 156
Target: 5' 1923 AACAGACTCTTCATATTCAGATGCAAATAACTTCATAAGATGAACACTGGAG 1974/2864 3'

Hit # 14 by hsa-miR-136 in the 3'UTR
Query:  3' 0    AGGT-AGTA-------GTTTTGTTTACCT 2 5'
w/o GU          || | | ||       ||||||||||  | BLAST score 140
Target: 5' 1982 TCAAATAATAAAGTAGCAAAACAAATTCA 2010/2864 3'
Query:  3' 2    GTAGT--A----------GTTTTGTTTACCT 2 5'
w/GU            *||||  |          ||||||||||  | BLAST score 143
Target: 5' 1980 TATCAAATAATAAAGTAGCAAAACAAATTCA 2010/2864 3'

Hit # 15 by hsa-miR-33 in the 3'UTR
Query:  3' 1    T-TACG---TTGATGTTAC----------GT 1 5'
w/o GU          | || |   ||||||||||          || BLAST score 126.5
Target: 5' 2456 ATATCCTGTAACTACAATGATGGTAAAGCCA 2486/2864 3'
Query:  3' 0    GTT--A-----CGTTGATGTTAC----------GTG 0 5'
w/GU            *||  |     |*||||||||||          ||* BLAST score 157.5
Target: 5' 2452 TAAAATATCCTGTAACTACAATGATGGTAAAGCCAT 2487/2864 3'

Target # 46: >gi|27477106|ref|NM_032217.2| Homo sapiens gene trap ankyrin repeat (GTAR), mRNA
CDS: 118 7926
Hit # 1 by hsa-miR-222 in the CDS
Query:  3' 0    C--TCTGGG----------------------------------TCATCGGTCTA----C-ATC---------GA 0 5'
w/o GU          |  | ||||                                  |||||||||||    | |||         || BLAST score 162.5
Target: 5' 1217 GTCATACCCCTCTTATGGAAGCTGGAAGTGCTGGACATGTGGAAGTAGCCAGATTGCTGCTAGAAAATGGGGCT 1290/9016 3'
Query:  3' 0    C--TCTGGG-----TCATCGGTCTACAT--CGA 0 5'
w/GU            |  *||| *     ||||||||||| |*  ||| BLAST score 180.5
Target: 5' 1246 GCTGGACATGTGGAAGTAGCCAGAT-TGCTGCT 1277/9016 3'

Hit # 2 by hsa-miR-19b in the CDS
Query:  3' 0    AGTCAA------AACGTACCTA----------------------------AACGTGT 0 5'
w/o GU          || | |      ||||||||||                            ||| ||| BLAST score 153.5
Target: 5' 1428 TCTGATGGAGGCTTGCATGGATGGCCATGTTGAAGTAGCTAGGTTACTTCTTG-ACA 1483/9016 3'
Query:  3' 0    AGTCAA------AACGTACCTA-------AAC-GTGT 0 5'
w/GU            || | |      ||||||||||       |||  **| BLAST score 161.5
Target: 5' 1428 TCTGATGGAGGCTTGCATGGATGGCCATGTTGAAGTA 1464/9016 3'

Hit # 3 by hsa-miR-188 in the CDS
Query:  3' 0    T--GGGAGGTGGT--AC-GT---TC-----------------CCTA 1 5'
w/o GU          |  ||||||||||  || ||   ||                  ||| BLAST score 145
Target: 5' 2292 AGCCCCTCCACCAGATGTCACTCAGTTAACTCCCCCATCCCACGAT 2337/9016 3'
Query:  3' 0    T-GGGAGGTGGT--AC-GT---TCCCT 2 5'
w/GU            * ||||||||||  || ||   ||  | BLAST score 139.5
Target: 5' 2293 GCCCCTCCACCAGATGTCACTCAGTTA 2319/9016 3'

Hit # 4 by hsa-miR-221 in the CDS
Query:  3' 0    CTTTGGGTCGTCTG------------------------TTACATC-GA 0 5'
w/o GU          ||| ||||||||||                        |||  || || BLAST score 164
Target: 5' 2935 GAACCCCAGCAGACTGCTGCTCAGATGGGTTTTGCGCCAATCCAGCCT 2982/9016 3'
Query:  3' 0    CTTTGGGTCGTCTG---------TTACATCGA 0 5'
w/GU            ||| ||||||||||         *||| *|*| BLAST score 186.5
Target: 5' 2935 GAACCCCAGCAGACTGCTGCTCAGATG-GGTT 2965/9016 3'

Hit # 5 by mmu-miR-150 in the CDS
Query:  3' 0    TG-----TGACCATGTT----CCCAACCCTCT 0 5'
w/o GU          ||     ||||||||||     | | | |||| BLAST score 159.5
Target: 5' 3398 ACGAGGAACTGGTACAAACACTGCTAGAGAGA 3429/9016 3'
Query:  3' 0    TG-----TGACCATGTT----CCCAACCCTCT 0 5'
w/GU            ||     ||||||||||     | | | |||| BLAST score 159.5
Target: 5' 3398 ACGAGGAACTGGTACAAACACTGCTAGAGAGA 3429/9016 3'

Hit # 6 by hsa-miR-136 in the CDS
Query:  3' 0    AG---------------GTAGTAGTTTT-----G-TTTA---CCTC-A 0 5'
w/o GU          ||               |||||||||||     | ||||   |||| | BLAST score 177.5
Target: 5' 3688 TCTGGTGGCTATGTGAACATCATCAAAATATTACTAAATGCAGGAGCT 3735/9016 3'
Query:  3' 0    AG---------------GTAGTAGTTTT------GTTTA---CCTC-A 0 5'
w/GU            ||               |||||||||||      *||||   |||| | BLAST score 185.5
Target: 5' 3688 TCTGGTGGCTATGTGAACATCATCAAAATATTACTAAATGCAGGAGCT 3735/9016 3'

Hit # 7 by hsa-miR-216 in the CDS
Query:  3' 0    GT-GTC----AACG------G---TCGACTCTAAT 0 5'
w/o GU          || ||     || |      |   ||||||||||| BLAST score 146
Target: 5' 3708 CATCAAAATATTACTAAATGCAGGAGCTGAGATTA 3742/9016 3'
Query:  3' 0    GTG----TCAACGG----------------------------------TCGACTCTAAT 0 5'
w/GU            **|    *|| ||*                                  ||||||||||| BLAST score 162.5
Target: 5' 3684 TGCTTCTGGTGGCTATGTGAACATCATCAAAATATTACTAAATGCAGGAGCTGAGATTA 3742/9016 3'

Hit # 8 by hsa-miR-197 in the CDS
Query:  3' 0    CG-A-------CCCAC--CTCTTCCACCAC------------TT 0 5'
w/o GU          || |       ||||   | ||||||||||            || BLAST score 152
Target: 5' 4291 GCATTTAGAAAGGGTCATGTGAAGGTGGTGCGCTACTTAGTCAA 4334/9016 3'
Query:  3' 0    CG----------------ACCCAC------CT-----------CTTCCACCAC--------TT 0 5'
w/GU            ||                |||  |      ||           ||||||||||        |* BLAST score 142.5
Target: 5' 4268 GCAAGATAACTCCTCTTATGGCAGCATTTAGAAAGGGTCATGTGAAGGTGGTGCGCTACTTAG 4330/9016 3'

Hit # 9 by mmu-let-7h in the CDS
Query:  3' 0    TTG-A----CA---TGT--GTGATGATGG-----------A-GT 0 5'
w/o GU          ||| |    ||   |||  ||||||||||           | || BLAST score 161
Target: 5' 4709 AACCTCCAAGTGCCACAACCACTACTACCATAGGTATATCTGCA 4752/9016 3'
Query:  3' 0    TTG-A----CATG-T----GTGATGATGGAGT 0 5'
w/GU            ||| |    ||*| |    |||||||||| *| BLAST score 170.5
Target: 5' 4709 AACCTCCAAGTGCCACAACCACTACTACCATA 4740/9016 3'

Hit # 10 by hsa-miR-140 in the CDS
Query:  3' 0    GATGGTATCC-------CATT-------TTG-----GT----GA 0 5'
w/o GU          ||||||||||       | ||       |||     ||    || BLAST score 154
Target: 5' 4733 CTACCATAGGTATATCTGCAACCTGGACAACTTTGGCAGGTTCT 4776/9016 3'
Query:  3' 0    GATGGTATCC-------CATT----TTGGTGA 0 5'
w/GU            ||||||||||       | ||    *|| ||| BLAST score 163.5
Target: 5' 4733 CTACCATAGGTATATCTGCAACCTGGACAACT 4764/9016 3'

Hit # 11 by hsa-miR-212 in the CDS
Query:  3' 0    C---CGGCACTGACCTCTG-ACAAT 0 5'
w/o GU          |   | |  ||||||||||  | || BLAST score 129.5
Target: 5' 5406 GAAAGACAAGACTGGAGACCGGATA 5430/9016 3'
Query:  3' 0    CC--------------GGC-A--------------CTGACCTCTG-ACAAT 0 5'
w/GU            ||              **| |              ||||||||||  | || BLAST score 138
Target: 5' 5380 GGTGCACACATAGATATTGATAAACAGAAAGACAAGACTGGAGACCGGATA 5430/9016 3'

Hit # 12 by hsa-miR-214 in the CDS
Query:  3' 0    GACGGA--C---A--GACACGGACG--ACA 0 5'
w/o GU          |||||   |   |  ||||||||||  | | BLAST score 148.5
Target: 5' 5657 CTGCCACAGCACTCACTGTGCCTGCAATTT 5686/9016 3'
Query:  3' 0    GACGGA--C---A--GACACGGACG--ACA 0 5'
w/GU            |||||   |   |  ||||||||||  | | BLAST score 148.5
Target: 5' 5657 CTGCCACAGCACTCACTGTGCCTGCAATTT 5686/9016 3'

Hit # 13 by hsa-miR-21 in the CDS
Query:  3' 0    AGT--------TGTAGTCAGACTAT-------TCGA--T 0 5'
w/o GU          |||        ||||||||||||||       ||||  | BLAST score 187.5
Target: 5' 6994 TCAGATCCTTTACATCAGTCTGATACTTCCAAAGCTCCA 7032/9016 3'
Query:  3' 0    AGT--------TGTAGTCAGACTAT-------TCGA--T 0 5'
w/GU            |||        ||||||||||||||       ||||  | BLAST score 187.5
Target: 5' 6994 TCAGATCCTTTACATCAGTCTGATACTTCCAAAGCTCCA 7032/9016 3'

Hit # 14 by mmu-miR-203 in the CDS
Query:  3' 1    G-ATCACCA---------GGA-----------------------------TTTGTAAAGT 1 5'
w/o GU          | || ||||         |||                             |||||||||| BLAST score 148
Target: 5' 7097 CATA-TGGTTCTGTAACACCTTCTTCAACACATTTGGGAAACTTTGCTTCAAACATTTCA 7155/9016 3'
Query:  3' 0    AGATCACCAGGA------TTTGTAAAGT 1 5'
w/GU            |*|*|    |*|      |||||||||| BLAST score 159
Target: 5' 7128 TTTGGGAAACTTTGCTTCAAACATTTCA 7155/9016 3'

Hit # 15 by hsa-miR-142 in the 3'UTR
Query:  3' 0    CAT--CAC-GAAAGATGAAATAC 0 5'
w/o GU          |||  | | |  ||||||||||| BLAST score 141
Target: 5' 8366 GTATAGAGGC--TCTACTTTATG 8386/9016 3'
Query:  3' 0    CAT-----------CA--CGAA------AGATGAAATAC 0 5'
w/GU            |||           ||  |* |      ||||||||||| BLAST score 154
Target: 5' 8348 GTAAATTTCAATATGTCAGTATAGAGGCTCTACTTTATG 8386/9016 3'

Target # 47: >gi|13540512|ref|NM_030758.1| Homo sapiens oxysterol binding protein 2 (OSBP2), mRNA
CDS: 105 2855
Hit # 1 by hsa-miR-197 in the CDS
Query:  3' 1    GAC-C-CACC--T------CTTCCACCACTT 0 5'
w/o GU          ||| | ||||  |      |||||||||||| BLAST score 173
Target: 5' 1135 CTGAGAGTGGGGAGAAGCTGAAGGTGGTGAA 1165/2886 3'
Query:  3' 1    GAC-C-CACCT--------CTTCCACCACTT 0 5'
w/GU            ||| | ||||*        |||||||||||| BLAST score 181
Target: 5' 1135 CTGAGAGTGGGGAGAAGCTGAAGGTGGTGAA 1165/2886 3'

Hit # 2 by hsa-miR-92 in the CDS
Query:  3' 0    TGTC--C-----------------GGCCCTGTTCA---------------------C-GTT--AT 0 5'
w/o GU          ||||  |                 |||||||||||                     | |||  || BLAST score 158.5
Target: 5' 1519 ACAGCAGAAAAGCTGAAGGTAGCACCGGGACAAGTTCCGTGGACTGGAGCTCAGCAGACAATGTA 1583/2886 3'
Query:  3' 0    TGTCC-GGCCCTGTTCACGTTAT 0 5'
w/GU            **||  ||||||||||| | *|* BLAST score 174
Target: 5' 1537 GTAGCACCGGGACAAGTTCCGTG 1559/2886 3'

Hit # 3 by hsa-miR-221 in the CDS
Query:  3' 0    CTT------TGG-------------------------GTCGTCTGTTACAT--------------CGA 0 5'
w/o GU          |||      |||                         ||||||||||||||              ||| BLAST score 183.5
Target: 5' 1533 GAAGGTAGCACCGGGACAAGTTCCGTGGACTGGAGCTCAGCAGACAATGTACTAGATGGTGCCTCGCT 1600/2886 3'
Query:  3' 0    CTTTGGGTCGTCTGTTACAT--------------CGA 0 5'
w/GU            |*|*|*||||||||||||||              ||| BLAST score 215
Target: 5' 1564 GGAGCTCAGCAGACAATGTACTAGATGGTGCCTCGCT 1600/2886 3'

Hit # 4 by mmu-miR-129b in the CDS
Query:  3' 0    TTGTTCGGGT------C-----TGG------CGT--T-TTTC 0 5'
w/o GU          ||||||||||      |     |||      |||  |  ||| BLAST score 157.5
Target: 5' 1647 AACAAGCCCAACTACAGCCTTAACCTCTGGAGCATCATGAAG 1688/2886 3'
Query:  3' 0    TTGTTCGGGT-----CTGGCGTT-----TTTC 0 5'
w/GU            ||||||||||      *|| *||     **|| BLAST score 174
Target: 5' 1647 AACAAGCCCAACTACAGCCTTAACCTCTGGAG 1678/2886 3'

Hit # 5 by hsa-miR-216 in the CDS
Query:  3' 1    TGTCAACGGTCGACTCTAA 1 5'
w/o GU          || | ||||||||||  || BLAST score 140
Target: 5' 2236 ACCGGTGCCAGCTGAAGTT 2254/2886 3'
Query:  3' 0    GTGT-C-----A------ACGGTCGACTCTAA---T 0 5'
w/GU            ||*| |     |      |||||||||| *||   * BLAST score 158
Target: 5' 2223 CATAAGACCAATGACCGGTGCCAGCTGAAGTTCCTG 2258/2886 3'

Hit # 6 by hsa-miR-16 in the CDS
Query:  3' 1    CGGTTATAAATGCACGAC-----GA 1 5'
w/o GU          ||| |   ||||||||||     || BLAST score 137.5
Target: 5' 2328 GCCCA---TTACGTGCTGTCCGGCT 2349/2886 3'
Query:  3' 0    G-CGGTTATA--------AATGCACGAC-----GA-T 0 5'
w/GU            | ||||* *         ||||||||||     || * BLAST score 155.5
Target: 5' 2315 CAGCCAGGGCAAGGCCCATTACGTGCTGTCCGGCTCG 2351/2886 3'

Hit # 7 by hsa-miR-136 in the CDS
Query:  3' 0    AGGT--AG-----TAGTTTTGTTTACCTCA 0 5'
w/o GU          |||   ||     ||   |||||||||||| BLAST score 156.5
Target: 5' 2343 TCCGGCTCGTGGGATG--AACAAATGGAGT 2370/2886 3'
Query:  3' 0    AGGT--AGTAGTT---TTGTTTACCTCA 0 5'
w/GU            |||*  ||*| **   |||||||||||| BLAST score 199
Target: 5' 2343 TCCGGCTCGTGGGATGAACAAATGGAGT 2370/2886 3'

Target # 48: >gi|27501317|ref|XM_050478.2| Homo sapiens KIAA1202 protein (KIAA1202), mRNA
CDS: 27 4508
Hit # 1 by hsa-miR-188 in the CDS
Query:  3' 0   T--GGGA----------GGTGGTACGT------------TC------CCTAC 0 5'
w/o GU         |  ||||          ||||||||||            ||      |  || BLAST score 148
Target: 5' 353 ATGCCCTGAAGCAGCCACCACCATGCATTTCCCTTCTGAAGCCTTCAGCTTG 404/6224 3'
Query:  3' 0   TGGGA----------GGTGGTACGT-----------------------------TC------CCTAC 0 5'
w/GU           *||||          ||||||||||                             *|      || || BLAST score 161
Target: 5' 355 GCCCTGAAGCAGCCACCACCATGCATTTCCCTTCTGAAGCCTTCAGCTTGTCCTGGCATTCTGGCTG 421/6224 3'

Hit # 2 by mmu-miR-187 in the CDS
Query:  3' 0   GGCCGACGTTGTGTTCTGTGC 1 5'
w/o GU         | ||||||||||||||  ||| BLAST score 172.5
Target: 5' 415 CTGGCTGCAACACAAGTGACG 435/6224 3'
Query:  3' 0   GGCCGACGTTGTGTTC--TGTGC-T 0 5'
w/GU           |*||||||||||||||  ||**| * BLAST score 202.5
Target: 5' 415 CTGGCTGCAACACAAGTGACGTGTG 439/6224 3'

Hit # 3 by mmu-miR-204 in the CDS
Query:  3' 0    GTC-----------------CGTATCCTAC--TGTTTCCCTT 0 5'
w/o GU          |||                 ||| || | |  |||||||||| BLAST score 161
Target: 5' 1356 CAGTGGACTCTGTCCCCTTTGCACAGCA-GCCACAAAGGGAA 1396/6224 3'
Query:  3' 0    GTCCGTATCC-T----AC--------------------------TGTTTCCCTT 0 5'
w/GU            |||| ||*|| |    ||                          |||||||||| BLAST score 172
Target: 5' 1344 CAGG-ATGGGCACCAGTGGACTCTGTCCCCTTTGCACAGCAGCCACAAAGGGAA 1396/6224 3'

Hit # 4 by hsa-miR-194 in the CDS
Query:  3' 0    A---GGTGTACCTCAACGAC-A-ATGT 0 5'
w/o GU          |   ||||||||||  |||| |  ||| BLAST score 156
Target: 5' 1508 TCCCCCACATGGAGAGGCTGATGGACA 1534/6224 3'
Query:  3' 0    A---GGTGTACCTCAACGACAATGT 0 5'
w/GU            |   ||||||||||  |||| |* | BLAST score 160.5
Target: 5' 1508 TCCCCCACATGGAGAGGCTGATGGA 1532/6224 3'

Hit # 5 by hsa-miR-22 in the CDS
Query:  3' 0    TGTCAAGAAGTTG---A--CCGTCGA--A 0 5'
w/o GU          || ||||||||||   |   ||||||  | BLAST score 167.5
Target: 5' 1642 ACTGTTCTTCAACCACTAAAGCAGCTAGT 1670/6224 3'
Query:  3' 0    TGT----CAAGAAGTTG---A--CCGTCGA--A 0 5'
w/GU            ||*    ||||||||||   |   ||||||  | BLAST score 170
Target: 5' 1638 ACGGACTGTTCTTCAACCACTAAAGCAGCTAGT 1670/6224 3'

Hit # 6 by hsa-miR-222 in the CDS
Query:  3' 0    CTCTGGGTCA-------------TCGGT-CTACAT-C-GA 0 5'
w/o GU          ||||||||||             ||||| || | | | || BLAST score 175
Target: 5' 3282 GAGACCCAGTCGGATCTTCTCGGAGCCAGGAAGAAGGCCT 3321/6224 3'
Query:  3' 0    CTCTGGGTCA-------------TCGG-TCTAC-ATC-GA 0 5'
w/GU            ||||||||||             |||| *|| |  *| || BLAST score 175
Target: 5' 3282 GAGACCCAGTCGGATCTTCTCGGAGCCAGGAAGAAGGCCT 3321/6224 3'

Hit # 7 by mmu-miR-106b in the CDS
Query:  3' 0    TAGAC--G--------TGAC-------------------AGTCGTGAAA 0 5'
w/o GU          ||| |  |        ||||                   |||||||||| BLAST score 149
Target: 5' 3758 ATCGGGACAGGAAGCCACTGAATCCGCCAAACAAGAGTTTCAGCACTTT 3806/6224 3'
Query:  3' 1    AGAC-----GTG----------------AC-------------------AGTCGTGAAA 0 5'
w/GU            |*||     ||*                ||                   |||||||||| BLAST score 146
Target: 5' 3748 TTTGGAGGACATCGGGACAGGAAGCCACTGAATCCGCCAAACAAGAGTTTCAGCACTTT 3806/6224 3'

Hit # 8 by hsa-miR-197 in the CDS
Query:  3' 0    C-GA-----CCCACCTCTTCCACCACTT 0 5'
w/o GU          | ||     |||||||||| |   |||| BLAST score 151
Target: 5' 4180 GACTGGCCCGGGTGGAGAATGCTCTGAA 4207/6224 3'
Query:  3' 0    C-GA-----CCCACCTCTTCCACCACTT 0 5'
w/GU            | ||     |||||||||| |   |||| BLAST score 151
Target: 5' 4180 GACTGGCCCGGGTGGAGAATGCTCTGAA 4207/6224 3'

Hit # 9 by hsa-miR-125a in the CDS
Query:  3' 1    TGTCCAATTTC---C------------------CAGAGTCCCT 0 5'
w/o GU          | | | | |||   |                  |||||||||| BLAST score 143.5
Target: 5' 4435 AGAAGATCAAGCTCGGGGAAGAGCAACTCAAATGTCTCAGGGA 4477/6224 3'
Query:  3' 0    GTGTCCAATTTCC---------------------------------CAGAGTCCCT 0 5'
w/GU            |* * | |**|||                                 |||||||||| BLAST score 168
Target: 5' 4422 CGAGAGCTGGAGGAGAAGATCAAGCTCGGGGAAGAGCAACTCAAATGTCTCAGGGA 4477/6224 3'

Hit # 10 by hsa-miR-183 in the CDS/3'UTR
Query:  3' 0    GTC---AC---TTAAGATGGTC-----ACGGTAT 0 5'
w/o GU          |||   |    |||||||||||     ||||| | BLAST score 175.5
Target: 5' 4496 CAGCAATTTCTAATTCTACCAGCACTCTGCCACA 4529/6224 3'
Query:  3' 0    GTCAC-------------TTAAGATGGTC-----ACGGTAT 0 5'
w/GU            **| |             |||||||||||     ||||| | BLAST score 180
Target: 5' 4489 TGGGGCCCAGCAATTTCTAATTCTACCAGCACTCTGCCACA 4529/6224 3'

Hit # 11 by mmu-miR-203 in the 3'UTR
Query:  3' 0    AGA------------------TCACCAGGATTTGT--A---------A-------AGTG 0 5'
w/o GU          |||                  ||||||||||| ||  |         |        ||| BLAST score 155
Target: 5' 4638 TCTCACTACCCCTTCCCTAGCAGTGGTCCTAACCAGCTAGGAGACCCTGGGGAAGCCAC 4696/6224 3'
Query:  3' 0    AGA------------------TCACCAGGATT-------------------------TG--T-AAAGTG 0 5'
w/GU            |||                  |||||||||||                         ||  * || *|| BLAST score 162.5
Target: 5' 4638 TCTCACTACCCCTTCCCTAGCAGTGGTCCTAACCAGCTAGGAGACCCTGGGGAAGCCACAAGCTTCTAC 4706/6224 3'

Hit # 12 by hsa-miR-216 in the 3'UTR
Query:  3' 0    GTGTCAACGGT-------------CGAC---TCTAAT 0 5'
w/o GU          |||||||||||             ||||   |||  | BLAST score 161
Target: 5' 4755 CACAGTTGCCAAGGGCAAGTACTTGCTGCACAGAGAA 4791/6224 3'
Query:  3' 0    GTGTCAACGGT-------------CGAC---TCTAAT 0 5'
w/GU            |||||||||||             ||||   |||  | BLAST score 161
Target: 5' 4755 CACAGTTGCCAAGGGCAAGTACTTGCTGCACAGAGAA 4791/6224 3'

Hit # 13 by hsa-miR-17-3p in the 3'UTR
Query:  3' 0    TG-----TTCACGGAAGT--GACG--------------------------TCA 0 5'
w/o GU          ||     |||||||||||  ||||                          ||| BLAST score 159.5
Target: 5' 4791 ACCAAGGAAGTGCCTTCATTCTGCTTTGTACTAGGACACCAAAGACATCAAGT 4843/6224 3'
Query:  3' 0    TG-----TTCACGGAAGT-------GACGTCA 0 5'
w/GU            ||     |||||||||||       *||*| | BLAST score 165.5
Target: 5' 4791 ACCAAGGAAGTGCCTTCATTCTGCTTTGTACT 4822/6224 3'

Hit # 14 by hsa-miR-124a in the 3'UTR
Query:  3' 0    A---CCGTAAGTGG----------------CGCA-------CGGAA-------TT 0 5'
w/o GU          |   ||||||||||                || |       || ||       || BLAST score 146.5
Target: 5' 4961 TGAGGGCATTCACCTGGCACCAGTTTCAGGGCCTCACCCAAGCTTTGCAGGGGAA 5015/6224 3'
Query:  3' 0    A---CCGTAAGTGG----------------CGCA-------CGGAAT-T 0 5'
w/GU            |   ||||||||||                || |       ||*||* | BLAST score 162
Target: 5' 4961 TGAGGGCATTCACCTGGCACCAGTTTCAGGGCCTCACCCAAGCTTTGCA 5009/6224 3'

Target # 49: >gi|7656945|ref|NM_006345.2| Homo sapiens chromosome 4 open reading frame 1 (C4orf1), mRNA
CDS: 121 1827
Hit # 1 by hsa-miR-222 in the CDS
Query:  3' 0   CTCTGGGTCATCGGTCTACATCGA 0 5'
w/o GU         | | ||||     ||||||||||| BLAST score 154.5
Target: 5' 145 GCGGCCCA-----CAGATGTAGCT 163/3250 3'
Query:  3' 1   TCTGGGTCATCG------------GTCTACATCGA 0 5'
w/GU           *|*|***|  ||            ||||||||||| BLAST score 191
Target: 5' 129 GGGCTTGGCCGCCGCCGCGGCCCACAGATGTAGCT 163/3250 3'

Hit # 2 by mmu-miR-122b in the CDS
Query:  3' 0   AGTTTGTGGT-----AACAGT--G--TG-----AGGT 0 5'
w/o GU         ||||||||||     || |||  |  ||     | || BLAST score 166
Target: 5' 993 TCAAACACCAGATCCTTCTCATCCGTACGGATTTTCA 1029/3250 3'
Query:  3' 0   AGTTTGTGGT-----AACA------GTG--T-GAGGT 0 5'
w/GU           ||||||||||     || |      *||  | *|*|| BLAST score 178.5
Target: 5' 993 TCAAACACCAGATCCTTCTCATCCGTACGGATTTTCA 1029/3250 3'

Hit # 3 by mmu-miR-202 in the CDS
Query:  3' 0    AGA--AGG---G------------TACGCGATATGGAGA 0 5'
w/o GU          |||  |||   |            ||||||||||  ||| BLAST score 162.5
Target: 5' 1009 TCTCATCCGTACGGATTTTCAAATATGCGCTATATTTCT 1047/3250 3'
Query:  3' 1    GAAGG---GTACGCGATATGGAGA 0 5'
w/GU            *||*|   *||||||||||**||| BLAST score 200.5
Target: 5' 1024 TTTTCAAATATGCGCTATATTTCT 1047/3250 3'

Hit # 4 by hsa-miR-142 in the 3'UTR
Query:  3' 0    CAT-CA-----CGAAAGATGA---------AATA---C 0 5'
w/o GU          ||| ||     ||||||||||         | ||   | BLAST score 146.5
Target: 5' 2903 GTAAGTAAATAGCTTTCTACTGACCCTAAGTCATCAAG 2940/3250 3'
Query:  3' 0    CAT-CA-----CGAAAGATGA---------AATA---C 0 5'
w/GU            ||| ||     ||||||||||         | ||   | BLAST score 146.5
Target: 5' 2903 GTAAGTAAATAGCTTTCTACTGACCCTAAGTCATCAAG 2940/3250 3'

Hit # 5 by hsa-miR-136 in the 3'UTR
Query:  3' 0    AGGTAGTAGTTTTGTT------------------TAC--------C-TCA 0 5'
w/o GU          | ||||||||||||||                  |||        | ||| BLAST score 174
Target: 5' 2996 T-CATCATCAAAACAACTCATAACATACTTTAAAATGTTCAGGTAGCAGT 3044/3250 3'
Query:  3' 0    A-GGTAGTAGTTTTGTT------------------TAC--------C-TCA 0 5'
w/GU            | *||||||||||||||                  |||        | ||| BLAST score 184
Target: 5' 2994 TGTCATCATCAAAACAACTCATAACATACTTTAAAATGTTCAGGTAGCAGT 3044/3250 3'

Hit # 6 by hsa-miR-125a in the 3'UTR
Query:  3' 1    TGT--------------CCAATTTCCCAGAGTCCCT 0 5'
w/o GU          |||              ||||||||||    |   | BLAST score 117.5
Target: 5' 3196 ACAAAAAATAAATCCTTGGTTAAAGGG----AAAAA 3227/3250 3'
Query:  3' 0    GTGT--------------------------CCAATTTCCCAGAGTCCCT 0 5'
w/GU            ***|                          ||||||||||    |   | BLAST score 121.5
Target: 5' 3183 TGTAATGCTGGAAACAAAAAATAAATCCTTGGTTAAAGGG----AAAAA 3227/3250 3'

Target # 50: >gi|31455619|ref|NM_019001.1| Homo sapiens strand-exchange protein 1 (SEP1), mRNA
CDS: 1 5121
Hit # 1 by mmu-miR-132 in the CDS
Query:  3' 0   TGCTGG--------------------------------------------TACCGACATCTGACAA 1 5'
w/o GU         || |||                                            ||||||||||| || | BLAST score 146.5
Target: 5' 197 ACTACCTGGAGGTGTTGTTTCGCATTATTAAACCCAGGAAAGTGTTCTTTATGGCTGTAGA-TGGT 261/5121 3'
Query:  3' 0   TGCTGG---TACCGACATCTGACA-AT 0 5'
w/GU           **| *|   |||||||||||* || |* BLAST score 187
Target: 5' 238 GTGTTCTTTATGGCTGTAGATGGTGTG 264/5121 3'

Hit # 2 by hsa-miR-21 in the CDS
Query:  3' 0    A---GTTGTAGTCA---GACTATT--------C--GAT 0 5'
w/o GU          |   ||||||||||   || | ||        |  ||| BLAST score 155
Target: 5' 1475 TACACAACATCAGTACACTCAAAATCCATTTTGAACTA 1512/5121 3'
Query:  3' 0    A---GTTGTAGTCA----------------GAC-T-ATTC--------GAT 0 5'
w/GU            |   ||||||||||                *|| | ||*|        *|| BLAST score 165.5
Target: 5' 1475 TACACAACATCAGTACACTCAAAATCCATTTTGAACTAGGAAAACCTTTTA 1525/5121 3'

Hit # 3 by mmu-miR-135 in the CDS
Query:  3' 0    AAG-T--------GTATCCTTATTTT--TCG-GTAT 0 5'
w/o GU          ||| |        |||||||||||||  |||  ||| BLAST score 189.5
Target: 5' 3365 TTCGAGGCACCATCATAGGAATAAAAGGAGCTAATA 3400/5121 3'
Query:  3' 0    AAGT---------GTATCCTTATTTT--TCGG-TAT 0 5'
w/GU            |||*         |||||||||||||  |||* ||| BLAST score 210
Target: 5' 3365 TTCGAGGCACCATCATAGGAATAAAAGGAGCTAATA 3400/5121 3'

Hit # 4 by hsa-miR-17-3p in the CDS
Query:  3' 0    TGTTCACGGAA-------------GTGACGTCA 0 5'
w/o GU          |||||||||||             ||  | ||| BLAST score 148
Target: 5' 3496 ACAAGTGCCTTGGTGAACCTTTCTCATGGGAGT 3528/5121 3'
Query:  3' 0    TGTTCACGGAA-------------GTGACGTCA 0 5'
w/GU            |||||||||||             ||* | ||| BLAST score 160.5
Target: 5' 3496 ACAAGTGCCTTGGTGAACCTTTCTCATGGGAGT 3528/5121 3'

Hit # 5 by hsa-miR-140 in the CDS
Query:  3' 0    GATGGTATCCCATTTTGGTG 1 5'
w/o GU          |  ||||   |||||||||| BLAST score 133.5
Target: 5' 3557 CAGCCATC--GTAAAACCAC 3574/5121 3'
Query:  3' 0    GATGGTATCC---------------------------------------CATTTTGGTG 1 5'
w/GU            *| *|||*||                                       |||||||||| BLAST score 160
Target: 5' 3516 TTCTCATGGGAGTCGCTCTGAAACTGGAAATCAGAAGTTGACAGCCATCGTAAAACCAC 3574/5121 3'

Hit # 6 by hsa-miR-34 in the CDS
Query:  3' 0    TGTTGGTCGA-----------------TTC---T-GT-------GA-CGGT 0 5'
w/o GU          ||||||||||                 |||   | ||       || | || BLAST score 153
Target: 5' 3573 ACAACCAGCTGTACATCAACATAGCTCAAGTTCATCAGTTTCCTCTGGGCA 3623/5121 3'
Query:  3' 0    TGTTGGTCGA-------TTCTG-TGA---C-GGT 0 5'
w/GU            ||||||||||       || |* *||   | *|| BLAST score 169.5
Target: 5' 3573 ACAACCAGCTGTACATCAACATAGCTCAAGTTCA 3606/5121 3'

Hit # 7 by hsa-miR-145 in the CDS
Query:  3' 2    CCCT-------------AAGGACCCTT-----------T-TG---------A-CCTG 0 5'
w/o GU          ||||             ||||||||||           | ||         | |||| BLAST score 162.5
Target: 5' 4704 GGGACCATCGGTGCCAGTTCCTGGGAAGCCCTTCCATCATACTTTATATTCTGGGAC 4760/5121 3'
Query:  3' 0    TTCC------CT------AAGGACCCTT------------------T-TGA---CCTG 0 5'
w/GU            **||      |*      ||||||||||                  | |*|   |||| BLAST score 183
Target: 5' 4703 GGGGACCATCGGTGCCAGTTCCTGGGAAGCCCTTCCATCATACTTTATATTCTGGGAC 4760/5121 3'

Target # 51: >gi|31542938|ref|NM_000860.2| Homo sapiens hydroxyprostaglandin dehydrogenase 15-(NAD) (HPGD), mRNA
CDS: 19 819
Hit # 1 by mmu-miR-29b in the CDS
Query:  3' 0   TTGTGACTAA-----A----G---TTTACCACGAT 0 5'
w/o GU         |||||| |||     |    |   ||||||||||| BLAST score 187.5
Target: 5' 708 AACACTCATTGAAGATGATGCTTTAAATGGTGCTA 742/2601 3'
Query:  3' 0   TTGTGACTA------------AAGTTTACCACGAT 0 5'
w/GU           |||||| ||            ||*||||||||||| BLAST score 203.5
Target: 5' 708 AACACTCATTGAAGATGATGCTTTAAATGGTGCTA 742/2601 3'

Hit # 2 by hsa-miR-199b in the 3'UTR
Query:  3' 0    CTTGT-------------------CTATCAGATTTGTGAC 2 5'
w/o GU          || ||                   ||||||||||| | || BLAST score 155
Target: 5' 1014 GACCAAAGGCTAGGTTGTAATCTTGATAGTCTAAAAAATG 1053/2601 3'
Query:  3' 0    CT--TGT-----CTATCAGATTTGTGAC 2 5'
w/GU            |*  **|     ||||||||||| | || BLAST score 165.5
Target: 5' 1026 GGTTGTAATCTTGATAGTCTAAAAAATG 1053/2601 3'

Hit # 3 by hsa-miR-136 in the 3'UTR
Query:  3' 0    AGGT-----AGTAGTTTTGTTTAC---------CTCA 0 5'
w/o GU          || |     | |||||||||||||         || | BLAST score 169.5
Target: 5' 1043 TCTAAAAAATGATCAAAACAAATGATTTTCAAGGAAT 1079/2601 3'
Query:  3' 0    AG--GT-AG---------TAGTTTTGTTTAC---------CTCA 0 5'
w/GU            |*  *| ||         |||||||||||||         || | BLAST score 175
Target: 5' 1036 TTGATAGTCTAAAAAATGATCAAAACAAATGATTTTCAAGGAAT 1079/2601 3'

Hit # 4 by hsa-miR-1d in the 3'UTR
Query:  3' 0    TTAT-------GT---ATGAAGAAAT----GTA-AGGT 0 5'
w/o GU          ||||       ||   ||||||||||    | | |||| BLAST score 178
Target: 5' 1614 AATATTTTTTTCAAATTACTTCTTTATTGACTTGTCCA 1651/2601 3'
Query:  3' 0    TTATGT---------------ATGAAGAAAT----------G--TAAGGT 0 5'
w/GU            |||**|               ||||||||||          |  |||*|| BLAST score 192.5
Target: 5' 1609 AATGTAATATTTTTTTCAAATTACTTCTTTATTGACTTGTCCAAATTTCA 1658/2601 3'

Hit # 5 by hsa-miR-17-3p in the 3'UTR
Query:  3' 0    TGTTCACGGAAGTGA-----CGTCA 0 5'
w/o GU          |||| ||||||||||     | ||| BLAST score 164.5
Target: 5' 2108 ACAATTGCCTTCACTTTTAAGGAGT 2132/2601 3'
Query:  3' 0    TGTTCACGGAAGTGA-----CGTCA 0 5'
w/GU            |||| ||||||||||     | ||| BLAST score 164.5
Target: 5' 2108 ACAATTGCCTTCACTTTTAAGGAGT 2132/2601 3'

Target # 52: >gi|15890084|ref|NM_000495.3| Homo sapiens collagen, type IV, alpha 5 (Alport syndrome) (COL4A5), transcript variant 1, mRNA
CDS: 203 5260
Hit # 1 by hsa-miR-200b in the CDS
Query:  3' 0    GTAG------------TAATGGTCCGTCA--TAATC----TC 0 5'
w/o GU          || |            ||||||||||| |  |  ||    || BLAST score 157
Target: 5' 1767 CAACTGGTCCCAAAGGATTACCAGGCATTCCAGGAGCTCCAG 1808/6427 3'
Query:  3' 0    GT-AG-------TAATGGTCCGT---------------CAT----------A--ATCT 1 5'
w/GU            ** ||       |||||||||||               ||*          |  |*|| BLAST score 172.5
Target: 5' 1771 TGGTCCCAAAGGATTACCAGGCATTCCAGGAGCTCCAGGTGCTCCAGGCTTTCCTGGA 1828/6427 3'

Hit # 2 by hsa-miR-205 in the CDS
Query:  3' 0    GTCTGA--GG-CC-A-----------------------------------CCTTACTTCC---T 0 5'
w/o GU          ||| ||  || || |                                   ||||||||||   | BLAST score 146.5
Target: 5' 1815 CAGGCTTTCCTGGATCTAAAGGTGAACCTGGTGATATCCTCACTTTTCCAGGAATGAAGGGTGA 1878/6427 3'
Query:  3' 0    GTCTGAGG---CC-A-----------------------------------CCTTACTTCCT 0 5'
w/GU            |||*||**   || |                                   ||||||||||* BLAST score 176.5
Target: 5' 1815 CAGGCTTTCCTGGATCTAAAGGTGAACCTGGTGATATCCTCACTTTTCCAGGAATGAAGGG 1875/6427 3'

Hit # 3 by hsa-miR-145 in the CDS
Query:  3' 0    T--TCCCTAAGGACCC-----T----TTTGACC---TG 0 5'
w/o GU          |  |||||||||||||     |    || ||||   || BLAST score 188.5
Target: 5' 2680 ACCAGGGATTCCTGGGCCAATAGGTCAACCTGGTTTAC 2717/6427 3'
Query:  3' 0    T--TCCCTAAGGACCC------TT--TT-GACC---TG 0 5'
w/GU            |  |||||||||||||      **  || ||||   || BLAST score 193
Target: 5' 2680 ACCAGGGATTCCTGGGCCAATAGGTCAACCTGGTTTAC 2717/6427 3'

Hit # 4 by hsa-miR-186 in the CDS
Query:  3' 2    CGGGTTTTCCTCT--------TAAGA---AA 1 5'
w/o GU          || ||||||||||        |  ||   || BLAST score 141
Target: 5' 3084 GCTCAAAAGGAGAGAAGGGGGAACCTGGCTT 3114/6427 3'
Query:  3' 0    TTCGGGTTTTCCTCT--------TAAGA---AA 1 5'
w/GU            **||*||||||||||        |  ||   || BLAST score 173.5
Target: 5' 3082 GGGCTCAAAAGGAGAGAAGGGGGAACCTGGCTT 3114/6427 3'

Hit # 5 by mmu-miR-134 in the CDS
Query:  3' 0    AGG----GA--GA------------------CCAGTTGGTC----A-----GTGT 0 5'
w/o GU          |||    |   ||                  ||||||||||    |     | || BLAST score 138.5
Target: 5' 3724 TCCTGGACCAGCTGGACAGAAGGGTGAACCAGGTCAACCAGGCTTTGGAAACCCA 3778/6427 3'
Query:  3' 0    AGGGA---G----A------------------CCAGTTGGTC---AGTGT 0 5'
w/GU            |*|||   |    |                  ||||||||||   |** | BLAST score 161.5
Target: 5' 3723 TTCCTGGACCAGCTGGACAGAAGGGTGAACCAGGTCAACCAGGCTTTGGA 3772/6427 3'

Hit # 6 by hsa-miR-23b in the CDS
Query:  3' 0    C-ACCA--------TTAGGGACCG-T--TACACTA 0 5'
w/o GU          | ||||        |||||||||| |   || | | BLAST score 154.5
Target: 5' 4325 GCTGGTCCTCCAGGAATCCCTGGCCAGCCTGGGCT 4359/6427 3'
Query:  3' 0    C-ACCA--------TTAGGGACCG-TT--ACAC-------TA 0 5'
w/GU            | ||||        |||||||||| |*  || |       *| BLAST score 168
Target: 5' 4325 GCTGGTCCTCCAGGAATCCCTGGCCAGCCTGGGCTAAAGGGT 4366/6427 3'

Hit # 7 by hsa-miR-125a in the CDS
Query:  3' 0    GTGTCC--A-----------------ATTTCCCAGA--GTCC--------CT 0 5'
w/o GU          | ||||  |                 ||||||||||  ||||        || BLAST score 165
Target: 5' 4334 C-CAGGAATCCCTGGCCAGCCTGGGCTAAAGGGTCTACCAGGACCCCAAGGA 4384/6427 3'
Query:  3' 0    GTGTCCAATTTCCCAGA--GTCC-------CT 0 5'
w/GU            | **|| ||||||||||  ||||       |* BLAST score 184.5
Target: 5' 4352 CCTGGGCTAAAGGGTCTACCAGGACCCCAAGG 4383/6427 3'

Hit # 8 by mmu-miR-29b in the 3'UTR
Query:  3' 0    TTG---TGACTAA-------AGTTTACCACGAT 0 5'
w/o GU          |||   ||| | |       || |||||||||| BLAST score 159.5
Target: 5' 5343 AACTTTACT-ACTGCTGCCGTC-AATGGTGCTA 5373/6427 3'
Query:  3' 0    TTGTG--AC----TA----------AAGT--------------TTACCACGAT 0 5'
w/GU            *|**|  ||    ||          ||*|              |||||||||| BLAST score 183
Target: 5' 5321 GATGCAGTGTCTCATTGTCCCCAACTTTACTACTGCTGCCGTCAATGGTGCTA 5373/6427 3'

Hit # 9 by hsa-miR-148 in the 3'UTR
Query:  3' 0    TGTTTCAAGACATCACG-----T--GACT 0 5'
w/o GU          ||||||||||    | |     |  |||| BLAST score 138
Target: 5' 6125 ACAAAGTTCT----TCCAAACAATTCTGA 6149/6427 3'
Query:  3' 0    TGTTTCAAGACATCACG-----T--GACT 0 5'
w/GU            ||||||||||    | |     |  |||| BLAST score 138
Target: 5' 6125 ACAAAGTTCT----TCCAAACAATTCTGA 6149/6427 3'

Target # 53: >gi|27498694|ref|XM_209813.1| Homo sapiens similar to LINE-1 REVERSE TRANSCRIPTASE HOMOLOG (LOC285907), mRNA
CDS: 581 904
Hit # 1 by hsa-miR-136 in the 5'UTR
Query:  3' 0   AGGTAGT--AGT----------TTTGTTTACCT--------------------CA 0 5'
w/o GU         || || |  | |          |||||||||||                    || BLAST score 152.5
Target: 5' 403 TCAATGAAATAAAAGAGAATACAAACAAATGGAACAACATTCCACGCTCATGGGT 457/1207 3'
Query:  3' 1   GGTAG-TAGT----------------TTTGTTTACCT--------------------CA 0 5'
w/GU           |**|* | **                |||||||||||                    || BLAST score 165
Target: 5' 399 CTGTTCAATGAAATAAAAGAGAATACAAACAAATGGAACAACATTCCACGCTCATGGGT 457/1207 3'

Hit # 2 by hsa-miR-223 in the CDS
Query:  3' 2   CCATAAACTGTTTG-ACTGT 0 5'
w/o GU         | | |||||||||| ||||| BLAST score 156.5
Target: 5' 781 GATCTTTGACAAACCTGACA 800/1207 3'
Query:  3' 2   CCATAAACTGTTTG-ACTGT 0 5'
w/GU           | | |||||||||| ||||| BLAST score 156.5
Target: 5' 781 GATCTTTGACAAACCTGACA 800/1207 3'

Hit # 3 by mmu-miR-29b in the CDS
Query:  3' 0   TTGTGACT-------------A----------AAG----------TTTACCACGA---T 0 5'
w/o GU         ||| ||||             |          |||          ||||||||||   | BLAST score 161.5
Target: 5' 792 AAC-CTGACAAAAACAAGCAGTGGGGAAAGGATTCCCTATTTAATAAATGGTGCTGGGA 849/1207 3'
Query:  3' 0   TTGTGAC---------------TAAA--GTTTACCACGAT 0 5'
w/GU           |*|| ||               ||||  *||||||||||* BLAST score 193
Target: 5' 807 AGCAGTGGGGAAAGGATTCCCTATTTAATAAATGGTGCTG 846/1207 3'

Hit # 4 by hsa-miR-145 in the CDS
Query:  3' 0   TTCCCTAAG------------------GACCCTTTTGACC--T--G 0 5'
w/o GU         || ||||||                  |||||||||||||  |  | BLAST score 192.5
Target: 5' 817 AAAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAGTC 862/1207 3'
Query:  3' 0   TTC---CCTAAG------------------GACCCTTTTGACC---TG 0 5'
w/GU           **|   ||||||                  |||||||||||||   ** BLAST score 204
Target: 5' 814 GGGAAAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAGT 861/1207 3'

Target # 54: >gi|20543050|ref|XM_168640.1| Homo sapiens similar to reverse transcriptase related protein (LOC222252), mRNA
CDS: 808 1383
Hit # 1 by hsa-miR-223 in the 5'UTR
Query:  3' 2   CCATAAACTGTTTG-ACTGT 0 5'
w/o GU         | | |||||||||| ||| | BLAST score 144
Target: 5' 650 GATCTTTGACAAACCTGAGA 669/1966 3'
Query:  3' 2   CCATAAACTGTTTG-ACTGT 0 5'
w/GU           | | |||||||||| ||| | BLAST score 144
Target: 5' 650 GATCTTTGACAAACCTGAGA 669/1966 3'

Hit # 2 by mmu-miR-29b in the 5'UTR
Query:  3' 0   TTGTGACT-------------A----------AAG----------TTTACCACGA---T 0 5'
w/o GU         ||| ||||             |          |||          ||||||||||   | BLAST score 161.5
Target: 5' 661 AAC-CTGAGAAAAACAAGCAATGGGGAGAGGATTCCCTATTTAATAAATGGTGCTGGGA 718/1966 3'
Query:  3' 0   TTGTGAC---------------TAAA--GTTTACCACGAT 0 5'
w/GU           |*|| ||               ||||  *||||||||||* BLAST score 193
Target: 5' 676 AGCAATGGGGAGAGGATTCCCTATTTAATAAATGGTGCTG 715/1966 3'

Hit # 3 by hsa-miR-145 in the 5'UTR
Query:  3' 1   TC-CCTAAG------------------GACCCTTTTGACC--T-G 0 5'
w/o GU         || ||||||                  |||||||||||||  | | BLAST score 187
Target: 5' 686 AGAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAGC 730/1966 3'
Query:  3' 0   TTC-CCTAAG------------------GACCCTTTTGACC---TG 0 5'
w/GU           *|| ||||||                  |||||||||||||   *| BLAST score 205
Target: 5' 685 GAGAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAGC 730/1966 3'

Hit # 4 by mmu-miR-204 in the CDS
Query:  3' 1   TCCGT---AT------CC-T------------------------ACTGTTTCCC--TT 0 5'
w/o GU         |||||   ||      || |                        ||||||||||  || BLAST score 162
Target: 5' 997 AGGCAACCTACAAAATGGGAGAAAATTTTCGCAACCTACCCATCTGACAAAGGGCTAA 1054/1966 3'
Query:  3' 0   GTCCGT---AT------CCT-------------------------ACTGTTTCCC--TT 0 5'
w/GU           *|||||   ||      ||*                         ||||||||||  || BLAST score 180
Target: 5' 996 TAGGCAACCTACAAAATGGGAGAAAATTTTCGCAACCTACCCATCTGACAAAGGGCTAA 1054/1966 3'

Hit # 5 by hsa-miR-210 in the 3'UTR
Query:  3' 0    GT-CGGCGACA-----GTGTGCGTGT-C 0 5'
w/o GU          || || ||| |     |||||||||| | BLAST score 157.5
Target: 5' 1463 CATGCTGCTATGAAGACACACGCACACG 1490/1966 3'
Query:  3' 0    GT-CGGCGACA-----GTGTGCGTGT-C 0 5'
w/GU            || ||*||| |     |||||||||| | BLAST score 170
Target: 5' 1463 CATGCTGCTATGAAGACACACGCACACG 1490/1966 3'

Target # 55: >gi|22749446|ref|NM_152730.1| Homo sapiens hypothetical protein FLJ30899 (FLJ30899), mRNA
CDS: 8 1789
Hit # 1 by hsa-miR-181b in the 5'UTR/CDS
Query:  3' 13 GTTACTTACA-A 0 5'
w/o GU       |||||||||| | BLAST score 101.5
Target: 5' 2 CAATGAATGTGT 13/2323 3'
Query:  3' 10 GTCGTTACTTACA-A 0 5'
w/GU         *  |||||||||| | BLAST score 102.5
Target: 5' 1 T--CAATGAATGTGT 13/2323 3'

Hit # 2 by hsa-miR-182 in the CDS
Query:  3' 1   CACT---------------------CAAGA-T------GGTAACGGTTT 0 5'
w/o GU         ||||                     ||| | |      ||||||||||| BLAST score 159.5
Target: 5' 696 GTGATAATCCATATCCTTGGCCAATGTTTTCATCATATCCATTGCCAAA 744/2323 3'
Query:  3' 1   CACT---------------------CAAGA-T------GGTAACGGTTT 0 5'
w/GU           ||||                     |||*| |      ||||||||||| BLAST score 172
Target: 5' 696 GTGATAATCCATATCCTTGGCCAATGTTTTCATCATATCCATTGCCAAA 744/2323 3'

Hit # 3 by hsa-miR-208 in the CDS
Query:  3' 0   TGTTCGAAAA----AC-GAG-----CAGAATA 0 5'
w/o GU         ||||||||||    || |||      ||| || BLAST score 166
Target: 5' 801 ACAAGCTTTTATTATGCCTCAAAATATCTGAT 832/2323 3'
Query:  3' 0   TGTTCGAAAA----AC-GA-----GCAGAATA 0 5'
w/GU           ||||||||||    || ||     * ||| || BLAST score 166
Target: 5' 801 ACAAGCTTTTATTATGCCTCAAAATATCTGAT 832/2323 3'

Hit # 4 by mmu-miR-26b in the CDS
Query:  3' 0   TTGGA-TA----------------GGA-----CTTAATGAACTT 0 5'
w/o GU         ||||| ||                |||     |||||||||||| BLAST score 185
Target: 5' 891 AACCTGATATAATCAGTGGAGAGGCCTTAATAGAATTACTTGAA 934/2323 3'
Query:  3' 0   TTGGATA-------GGA-----CTTAATGAACTT 0 5'
w/GU           ||*| *|       |||     |||||||||||| BLAST score 185.5
Target: 5' 901 AATCAGTGGAGAGGCCTTAATAGAATTACTTGAA 934/2323 3'

Hit # 5 by hsa-miR-143 in the CDS
Query:  3' 0   A-CTCGATG---T-------CACGAAGTAGAGT 0 5'
w/o GU         | ||  |||   |       ||||||||||||| BLAST score 165.5
Target: 5' 921 TAGAATTACTTGAAAAATTTGTGCTTCATCTCA 953/2323 3'
Query:  3' 0   A-CTCGATG--T--------CACGAAGTAGAGT 0 5'
w/GU           | || *|||  *        ||||||||||||| BLAST score 178
Target: 5' 921 TAGAATTACTTGAAAAATTTGTGCTTCATCTCA 953/2323 3'

Hit # 6 by hsa-miR-105 in the 3'UTR
Query:  3' 0    T-GT-----CCTCAGACTC-----G--TA-AACT 0 5'
w/o GU          | ||     ||||||||||     |  ||   || BLAST score 128
Target: 5' 2079 AGCACTTTGGGAGTCTGAGGTGGGCGGATCACGA 2112/2323 3'
Query:  3' 0    TG---TCCTCAGACTC--------------------------------GTA-AACT 0 5'
w/GU            ||   *||||||||||                                |||  ||* BLAST score 145.5
Target: 5' 2082 ACTTTGGGAGTCTGAGGTGGGCGGATCACGAGGTCAAGAGATCGAGACCATCCTGG 2137/2323 3'

Target # 56: >gi|37546955|ref|XM_049952.2| Homo sapiens hypothetical protein FLJ23529 (FLJ23529), mRNA
CDS: 1 4536
Hit # 1 by hsa-miR-17-5p in the CDS
Query:  3' 0   TGATGGACGTGA-------C----A-TTCGTGA---AA 1 5'
w/o GU         ||||||||||||       |    | |||||||   || BLAST score 190.5
Target: 5' 387 ACTACCTGCACTAGATGCTGCCAATAAAGCACTGGATT 424/4708 3'
Query:  3' 0   TGATGGACGTGA-------C----A-TTCGTGA---AA 1 5'
w/GU           ||||||||||||       |    | |||||||   || BLAST score 190.5
Target: 5' 387 ACTACCTGCACTAGATGCTGCCAATAAAGCACTGGATT 424/4708 3'

Hit # 2 by hsa-miR-18 in the CDS
Query:  3' 0   ATAGACGTGATCTACG-----------------T--GGAAT 0 5'
w/o GU         || |||||||||||||                 |  ||||| BLAST score 182
Target: 5' 389 TACCTGCACTAGATGCTGCCAATAAAGCACTGGATTCCTTA 429/4708 3'
Query:  3' 0   ATAGACGTGATCTACG-----------------T--GGAAT 0 5'
w/GU           || |||||||||||||                 |  ||||| BLAST score 182
Target: 5' 389 TACCTGCACTAGATGCTGCCAATAAAGCACTGGATTCCTTA 429/4708 3'

Hit # 3 by mmu-miR-204 in the CDS
Query:  3' 0   GTCCGTA-TC--C------TACTGTTTCC-------CTT 0 5'
w/o GU         ||||| | |   |      ||||||||||       ||| BLAST score 165
Target: 5' 859 CAGGCCTTACAAGATGAATATGACAAAGGTGTAAATGAA 897/4708 3'
Query:  3' 0   GTCCGTATCC---------------TACTGTTTCC-------CTT 0 5'
w/GU           ||  *| |||               ||||||||||       ||| BLAST score 165.5
Target: 5' 853 CAAATACAGGCCTTACAAGATGAATATGACAAAGGTGTAAATGAA 897/4708 3'

Hit # 4 by hsa-miR-7 in the CDS
Query:  3' 0    TTGTTTTAGT------------G---------------ATCA----GAA-------GGT 0 5'
w/o GU          ||||||||||            |               | ||    |||       ||| BLAST score 146.5
Target: 5' 1638 AACAAAATCAGGCCTGGAGGATCAGTTGTTAAGTGATGTGGTGCGACTTGAAAAACCCA 1696/4708 3'
Query:  3' 0    TTGTTTTAGT---GA---TC-AG--AA-GGT 0 5'
w/GU            ||||||||||   ||   *| ||  || **| BLAST score 165
Target: 5' 1638 AACAAAATCAGGCCTGGAGGATCAGTTGTTA 1668/4708 3'

Hit # 5 by hsa-miR-22 in the CDS
Query:  3' 0    TGTCAAGAAGTT----GAC-------C--G----TCGAA 0 5'
w/o GU          ||||||||||||    |||       |  |    ||| | BLAST score 167
Target: 5' 2989 ACAGTTCTTCAAAATTCTGTCAAGGTGACCAATGAGCCT 3027/4708 3'
Query:  3' 0    TGTCAAGAAGTT----GACCG--TCG 2 5'
w/GU            ||||||||||||    ||| |  *|* BLAST score 168.5
Target: 5' 2989 ACAGTTCTTCAAAATTCTGTCAAGGT 3014/4708 3'

Hit # 6 by hsa-miR-7 in the CDS
Query:  3' 0    TT--G---TTTTA-G-T--GATCAGAAGGT 0 5'
w/o GU          ||  |   ||||| | |  ||||||||||| BLAST score 165.5
Target: 5' 3510 AATGCATGAAAATGCTAATCTAGTCTTCCA 3539/4708 3'
Query:  3' 0    T-TGTTTTAGT-----GATCAGAAGGT 0 5'
w/GU            * |**||| **     ||||||||||| BLAST score 178.5
Target: 5' 3513 GCATGAAAATGCTAATCTAGTCTTCCA 3539/4708 3'

Hit # 7 by hsa-miR-194 in the CDS
Query:  3' 0    A-GG-----TGTACCTCAACG----------------------ACAATGT 0 5'
w/o GU          | ||     ||||||||||||                      |||| || BLAST score 163.5
Target: 5' 4193 TGCCCATGGACATGGAGTTGCCCTCTCCTGAGGATGGTGTTCTTGTT-CA 4241/4708 3'
Query:  3' 0    AGG-------------------TGTACCTCAACG----------------------ACAA-TGT 0 5'
w/GU            |**                   ||||||||||||                      |||| |** BLAST score 175
Target: 5' 4180 TTTGGACAAGAACTGCCCATGGACATGGAGTTGCCCTCTCCTGAGGATGGTGTTCTTGTTCATG 4243/4708 3'

Hit # 8 by hsa-miR-216 in the CDS/3'UTR
Query:  3' 0    GT------GTC-A------ACGGTCGACTC---TAAT 0 5'
w/o GU          ||      ||| |      |||||||||||   || | BLAST score 157.5
Target: 5' 4500 CAAGGGATCAGCTTTGCTCTGCCAGCTGAGCGAATGA 4536/4708 3'
Query:  3' 0    GTGTCA-ACGGTCGACTC---TA-------AT 0 5'
w/GU            * ** | |||||||||||   ||       |* BLAST score 155.5
Target: 5' 4512 TTTGCTCTGCCAGCTGAGCGAATGAAAAGGTG 4543/4708 3'

Target # 57: >gi|38604068|ref|NM_022841.2| Homo sapiens hypothetical protein FLJ12994 (FLJ12994), mRNA
CDS: 229 4074
Hit # 1 by mmu-miR-126* in the CDS
Query:  3' 0    GCGCAT---GG------------TTTTCATTAT----------T-AC 0 5'
w/o GU          | | ||   ||            ||||||||||          | || BLAST score 140
Target: 5' 1628 CACCTAGTGCCCTTTTGGGGCAGAAAAGTAATACAGACGGAGCACTG 1674/4261 3'
Query:  3' 0    GCG-CATGG------------TTTTCATTAT----------T-AC 0 5'
w/GU            | * ||*||            ||||||||||          | || BLAST score 153.5
Target: 5' 1630 CCTAGTGCCCTTTTGGGGCAGAAAAGTAATACAGACGGAGCACTG 1674/4261 3'

Hit # 2 by hsa-miR-222 in the CDS
Query:  3' 0    CTCTG------GGT--------CATCGGTCTA----CATCGA 0 5'
w/o GU          || ||      |||        ||||||||||    | | || BLAST score 169.5
Target: 5' 2422 GACACATATAGCCAGCAGCTACGTAGCCAGATACAGGAATCT 2463/4261 3'
Query:  3' 1    TCTGGGT----------------CATCGGTCTA----CATCGA 0 5'
w/GU            *||| ||                ||||||||||    | | || BLAST score 166.5
Target: 5' 2421 GGACACATATAGCCAGCAGCTACGTAGCCAGATACAGGAATCT 2463/4261 3'

Hit # 3 by hsa-miR-196 in the CDS
Query:  3' 0    GGTTGTTGTA-C---TTTGAT-GGAT 0 5'
w/o GU          |||||||||| |   |||  | || | BLAST score 146
Target: 5' 3584 CCAACAACATAGCTCAAAGAAGCCAA 3609/4261 3'
Query:  3' 0    GGTTGTTGTA--------CTTT--------GATG-GAT 0 5'
w/GU            ||||||||||        |||*        *| | *|* BLAST score 165
Target: 5' 3584 CCAACAACATAGCTCAAAGAAGCCAATCAGTTCCATTG 3621/4261 3'

Hit # 4 by hsa-miR-217 in the CDS
Query:  3' 0    TAGGTTAGTCAAGG-----------ACTACGTCAT 0 5'
w/o GU          | ||||||||||||           |||||||| | BLAST score 195.5
Target: 5' 3604 AGCCAATCAGTTCCATTGACAGTCATGATGCAG-A 3637/4261 3'
Query:  3' 0    TAGGTTAGTCAAGG-----------ACTACGTCAT 0 5'
w/GU            | ||||||||||||           |||||||| | BLAST score 195.5
Target: 5' 3604 AGCCAATCAGTTCCATTGACAGTCATGATGCAG-A 3637/4261 3'

Hit # 5 by hsa-miR-96 in the CDS
Query:  3' 1    GT-T------TT------T-ACAC----GATCACGGTT---T 0 5'
w/o GU          || |      ||      | |||     ||||||||||   | BLAST score 139
Target: 5' 3790 CAGATTTTGGAACCTTCCACTGTTTTTCCTAGTGCCAACCCA 3831/4261 3'
Query:  3' 1    GTTTT------T-ACAC----GATCACGGTT---T 0 5'
w/GU            ***||      | |||     ||||||||||   | BLAST score 158.5
Target: 5' 3797 TGGAACCTTCCACTGTTTTTCCTAGTGCCAACCCA 3831/4261 3'

Hit # 6 by mmu-miR-122b in the CDS
Query:  3' 0    A-GTTTGTGGTAACAGTGTGA--GGT 0 5'
w/o GU          | ||||||||||  | || ||  ||| BLAST score 150.5
Target: 5' 3869 TCCAAACACCAT-CTTAC-CTCACCA 3892/4261 3'
Query:  3' 0    A-GTTTGTGGTA------A--------CAGTG-TGAGGT 0 5'
w/GU            | ||||||||||      |        || |* *| ||* BLAST score 165
Target: 5' 3869 TCCAAACACCATCTTACCTCACCAAAAGTAATAGCACCG 3907/4261 3'

Hit # 7 by mmu-miR-126* in the CDS
Query:  3' 1    CGCA--------------------TGGTTTTCATTAT-----------TA 1 5'
w/o GU          | ||                    |||||||||||||           || BLAST score 146
Target: 5' 3865 GAGTTCCAAACACCATCTTACCTCACCAAAAGTAATAGCACCGGTCAGAT 3914/4261 3'
Query:  3' 0    GCGCA--------------------TGGTTTTCATTATT 2 5'
w/GU            *| ||                    |||||||||||||* BLAST score 159.5
Target: 5' 3864 TGAGTTCCAAACACCATCTTACCTCACCAAAAGTAATAG 3902/4261 3'

Hit # 8 by hsa-miR-218 in the CDS
Query:  3' 1    GTACCAATC---TAGTTCGTGTT 0 5'
w/o GU          | |||  ||   ||||||||||| BLAST score 149
Target: 5' 3925 CCTGG--AGATAATCAAGCACAA 3945/4261 3'
Query:  3' 0    TGT-A------CCAATC----------------------TAGTTCGTGTT 0 5'
w/GU            **| |      ||| ||                      ||||||||||| BLAST score 159
Target: 5' 3896 GTAATAGCACCGGTCAGATCAATTTTTCTCCTGGAGATAATCAAGCACAA 3945/4261 3'

Target # 58: >gi|17485322|ref|XM_040067.2| Homo sapiens transcription factor 20 (AR1) (TCF20), mRNA
CDS: 158 5119
Hit # 1 by hsa-miR-217 in the CDS
Query:  3' 0   TAG--GTTAG--TC--------------AAG-G------ACTACGTCAT 0 5'
w/o GU         | |  ||| |  ||              ||| |      |||||||||| BLAST score 162.5
Target: 5' 213 AGCAGCAACCGCAGCAACAACAACACCCTTCTCAGCATGTGATGCAGTA 261/6509 3'
Query:  3' 0   TAGGTTAGTC--------------AAGG-------ACTACGTCAT 0 5'
w/GU           | ||*  |||              |||*       |||||||||| BLAST score 172
Target: 5' 219 AACCG--CAGCAACAACAACACCCTTCTCAGCATGTGATGCAGTA 261/6509 3'

Hit # 2 by hsa-miR-24 in the CDS
Query:  3' 0    GACAAGGACGA----------CTTGACTCGG-T 0 5'
w/o GU          | |  |||| |          |||||||||| | BLAST score 148.5
Target: 5' 1332 CGGGCCCTGGTTTTACGAGCAGAACTGAGCCTA 1364/6509 3'
Query:  3' 0    GACAAGGA--C--GACTTGACTCGG-T 0 5'
w/GU            ||| |**|  |  | |||||||||| | BLAST score 168.5
Target: 5' 1338 CTGGTTTTACGAGCAGAACTGAGCCTA 1364/6509 3'

Hit # 3 by mmu-miR-151 in the CDS
Query:  3' 0    TG---GA--G-TT------C-------------CTCGGAGTCAG-A-TC 0 5'
w/o GU          ||   ||  | ||      |             ||||||||||| | || BLAST score 150.5
Target: 5' 1778 ACTGACTATCCAATTCCCAGAAAGTTTGAAATAGAGCCTCAGTCATCAG 1826/6509 3'
Query:  3' 0    TGGAGTTC--CTCGGAGTCAG---------------ATC 0 5'
w/GU            ***| ||   |||||||||||               |*| BLAST score 170.5
Target: 5' 1801 GTTTGAAATAGAGCCTCAGTCATCAGCACATGAGCCTGG 1839/6509 3'

Hit # 4 by mmu-miR-204 in the CDS
Query:  3' 0    GT-------CCGTA---T----CCTACTGTTTCCCTT 0 5'
w/o GU          ||       ||| |   |    ||||||||||| ||| BLAST score 174
Target: 5' 3570 CAGAAGAGTGGCGTGGCAGCGTGGATGACAAAGTGAA 3606/6509 3'
Query:  3' 0    GT-------CCGTAT-------CCTACTGTTTCCCTT 0 5'
w/GU            ||       |||*|*       ||||||||||| ||| BLAST score 194.5
Target: 5' 3570 CAGAAGAGTGGCGTGGCAGCGTGGATGACAAAGTGAA 3606/6509 3'

Hit # 5 by hsa-miR-149 in the CDS
Query:  3' 0    CC-------TCACTTCTGTGCCTCGGTCT 0 5'
w/o GU          ||       ||||||||||  ||| || | BLAST score 154.5
Target: 5' 3592 GGATGACAAAGTGAAGACA--GAGACACA 3618/6509 3'
Query:  3' 0    CC-------TCACTTCTGT--------GC--C-----T-----CGGTCT 0 5'
w/GU            ||       ||||||||||        *|  |     *     |||*|| BLAST score 166.5
Target: 5' 3592 GGATGACAAAGTGAAGACAGAGACACATGCAGAAACAGTTACTGCCGGA 3640/6509 3'

Hit # 6 by hsa-miR-181b in the CDS
Query:  3' 0    TT-GG-----G-TGG----CTGTCGTTACTTACAA 0 5'
w/o GU          || ||     | |||    ||||||||||||| || BLAST score 190
Target: 5' 4792 AATCCCTGAACTACCTCTTGACAGCAATGAATTTT 4826/6509 3'
Query:  3' 0    T--TGGGTGGCTGTCGTTACTTACAA 0 5'
w/GU            |  |||* **||||||||||||| || BLAST score 206
Target: 5' 4801 ACTACCTCTTGACAGCAATGAATTTT 4826/6509 3'

Hit # 7 by hsa-miR-197 in the 3'UTR
Query:  3' 0    C-GAC-CCAC--CTCTTCCACCACTT 0 5'
w/o GU          | ||| || |  |||||||||||| | BLAST score 169
Target: 5' 5168 GACTGTGGAGATGAGAAGGTGGTGGA 5193/6509 3'
Query:  3' 0    C-GAC-CCAC--CTCTTCCACCACTT 0 5'
w/GU            | ||| || |  ||||||||||||*| BLAST score 181.5
Target: 5' 5168 GACTGTGGAGATGAGAAGGTGGTGGA 5193/6509 3'

Hit # 8 by hsa-miR-124a in the 3'UTR
Query:  3' 0    ACCGTAAGT--------------GGCGCACGGA-------------------ATT 0 5'
w/o GU          || | | |               ||||||||||                   ||| BLAST score 137.5
Target: 5' 5238 TGCCCTGCCCCGCCCCGCCCCGCCCGCGTGCCTGCCCATGCCAGCACTTCCTTAA 5292/6509 3'
Query:  3' 0    ACCG------TAAGT--------------------------------GGCGCACGGA-------------------ATT 0 5'
w/GU            | |*      *| ||                                ||||||||||                   ||| BLAST score 142.5
Target: 5' 5214 TCGTCCTACCGTGCAGCCACACCCTGCCCTGCCCCGCCCCGCCCCGCCCGCGTGCCTGCCCATGCCAGCACTTCCTTAA 5292/6509 3'

Hit # 9 by mmu-miR-151 in the 3'UTR
Query:  3' 0    TGGAGTTCCT-CGG-AG-TCAGAT 1 5'
w/o GU          ||||||||||  || || ||| || BLAST score 159.5
Target: 5' 5959 ACCTCAAGGACCCCATCAAGTGTA 5982/6509 3'
Query:  3' 0    TGGAGTTCCT-CGG-AG-TCAGAT 1 5'
w/GU            ||||||||||  || || ||| || BLAST score 159.5
Target: 5' 5959 ACCTCAAGGACCCCATCAAGTGTA 5982/6509 3'

Target # 59: >gi|31083295|ref|NM_006246.2| Homo sapiens protein phosphatase 2, regulatory subunit B (B56), epsilon isoform (PPP2R5E), mRNA
CDS: 591 1994
Hit # 1 by hsa-miR-181b in the CDS
Query:  3' 0   TT----GGGTGG----CTGTCGTTACTTACAA 0 5'
w/o GU         ||    ||| ||    ||||||||||||| || BLAST score 189
Target: 5' 965 AACTCTCCCTCCTAGTGACAGCAATGAAT-TT 995/3366 3'
Query:  3' 0   TTGGGTGG--------CTGTCGTTACTTACAA 0 5'
w/GU           |||*| ||        ||||||||||||| || BLAST score 197
Target: 5' 965 AACTCTCCCTCCTAGTGACAGCAATGAAT-TT 995/3366 3'

Hit # 2 by hsa-miR-182 in the CDS
Query:  3' 0    ACACTCAA---G-ATG-------------------------------GTAACGGTTT 0 5'
w/o GU          | ||| ||   | |||                               |||||||||| BLAST score 153.5
Target: 5' 1053 TATGAATTTTTCATACGATTTTTGGAAAGCCAAGAATTCCAACCCAGCATTGCCAAA 1109/3366 3'
Query:  3' 0    ACACTCAAGA--TG---------------------------------GTAACGGTTT 0 5'
w/GU            | ||| ||*|  |*                                 |||||||||| BLAST score 161.5
Target: 5' 1053 TATGAATTTTTCATACGATTTTTGGAAAGCCAAGAATTCCAACCCAGCATTGCCAAA 1109/3366 3'

Hit # 3 by mmu-miR-126* in the 3'UTR
Query:  3' 1    CG---------------C-------ATGGTTTTCA--------------------------------TT----ATTAC 0 5'
w/o GU          ||               |       ||||||||||                                ||    ||||| BLAST score 139
Target: 5' 3148 GCATATTCCTAACTACTGTATTTGTTACCAAAAGTGGTTCTACAAATGCTACTGAAAAAAATCTGGAAATTCCTAATG 3225/3366 3'
Query:  3' 0    GCGCATGGTTTTCATT---A---TTAC 0 5'
w/GU            *|* ||||||||||**   |   |||| BLAST score 172.5
Target: 5' 3170 TGT-TACCAAAAGTGGTTCTACAAATG 3195/3366 3'

Hit # 4 by hsa-miR-140as in the 3'UTR
Query:  3' 0    A-GG----CACCAAGATG-----G--GAC---------ACC-------AT 0 5'
w/o GU          | ||    ||||||||||     |  |||         |||       || BLAST score 158
Target: 5' 3173 TACCAAAAGTGGTTCTACAAATGCTACTGAAAAAAATCTGGAAATTCCTA 3222/3366 3'
Query:  3' 0    AGG----------CACCAAGATG------G-GAC---------ACC-------AT 0 5'
w/GU            |**          ||||||||||      * |||         |||       || BLAST score 163.5
Target: 5' 3168 TTTGTTACCAAAAGTGGTTCTACAAATGCTACTGAAAAAAATCTGGAAATTCCTA 3222/3366 3'

Target # 60: >gi|10835022|ref|NM_002222.1| Homo sapiens inositol 1,4,5-triphosphate receptor, type 1 (ITPR1), mRNA
CDS: 257 8344
Hit # 1 by hsa-miR-19b in the 5'UTR
Query:  3' 0   A-GTCAAAACGTACCTAAACGTG 1 5'
w/o GU         | |||    ||| |||||||||| BLAST score 143
Target: 5' 173 TACAGAGGAGCA-GGATTTGCAC 194/9517 3'
Query:  3' 0   A-GTCAAAACGTACCTAAACGTG 1 5'
w/GU           | |||    ||| |||||||||| BLAST score 143
Target: 5' 173 TACAGAGGAGCA-GGATTTGCAC 194/9517 3'

Hit # 2 by hsa-miR-23b in the CDS
Query:  3' 0   C-ACC------ATTAGGG---ACCGTTACACTA 0 5'
w/o GU         | |||      ||||||    |||||||||||| BLAST score 188.5
Target: 5' 586 GCTGGGGACCGTAATCCAGTATGGCAATGTGAT 618/9517 3'
Query:  3' 0   C-ACC------ATTAGG--G-ACCGTTACACTA 0 5'
w/GU           | |||      ||||||  * |||||||||||| BLAST score 193
Target: 5' 586 GCTGGGGACCGTAATCCAGTATGGCAATGTGAT 618/9517 3'

Hit # 3 by mmu-miR-126* in the CDS
Query:  3' 1   CG---CA-T-GG--------------TTTTCATTATT-----------AC 0 5'
w/o GU         ||   || | ||              |||||||||||           || BLAST score 145
Target: 5' 609 GCAATGTGATCCAGCTCCTGCATTTGAAAAGTAATAAATACCTAACAGTG 658/9517 3'
Query:  3' 0   GCGCATGG--TTTTCATTATT-----------AC 0 5'
w/GU           | *| |**  |||||||||||           || BLAST score 162.5
Target: 5' 625 CCTGCATTTGAAAAGTAATAAATACCTAACAGTG 658/9517 3'

Hit # 4 by hsa-miR-95 in the CDS
Query:  3' 0   A---CGAG---------------TTATTTATGG---GCAACTT 0 5'
w/o GU         |   ||||               ||||||||||   |  |||| BLAST score 160.5
Target: 5' 618 TCCAGCTCCTGCATTTGAAAAGTAATAAATACCTAACAGTGAA 660/9517 3'
Query:  3' 0   ACG-AG--------TTATTTATGG---------------------------GCAACTT 0 5'
w/GU           ||| |*        ||||||||||                           *||||*| BLAST score 178
Target: 5' 627 TGCATTTGAAAAGTAATAAATACCTAACAGTGAATAAGAGGCTTCCTGCTCTGTTGGA 684/9517 3'

Hit # 5 by hsa-miR-214 in the CDS
Query:  3' 0    GACGGAC---AGACACGGAC----G--AC---A 0 5'
w/o GU          || ||||   ||||||||||    |  ||   | BLAST score 159.5
Target: 5' 1270 CTCCCTGGTCTCTGTGCCTGAAGGCAATGACAT 1302/9517 3'
Query:  3' 0    GACGGAC---AGACACGGAC----G--AC---A 0 5'
w/GU            || ||||   ||||||||||    |  ||   | BLAST score 159.5
Target: 5' 1270 CTCCCTGGTCTCTGTGCCTGAAGGCAATGACAT 1302/9517 3'

Hit # 6 by hsa-miR-24 in the CDS
Query:  3' 0    GACA---AGGACGACTT---------GA-CT----CGGT 0 5'
w/o GU          | ||   ||||||||||         || ||    |||| BLAST score 167
Target: 5' 1512 CGGTTTCTCCTGCTGAAGTTCGGGACCTGGACTTTGCCA 1550/9517 3'
Query:  3' 0    GACA---AGGACGACTT-GA-CTC--GGT 0 5'
w/GU            | ||   |||||||||| *| |*|  |** BLAST score 172
Target: 5' 1512 CGGTTTCTCCTGCTGAAGTTCGGGACCTG 1540/9517 3'

Hit # 7 by hsa-miR-189 in the CDS
Query:  3' 0    TGA---CTATAGTCGA-------------------------------GTCAT---CC-GT-G 0 5'
w/o GU          |||   ||||||||||                               || ||   || || | BLAST score 158
Target: 5' 2409 ACTACAGATATCAGCTGAACCTCTTTGCGAGGATGTGTCTGGACCGCCAATACCTGGCCATC 2470/9517 3'
Query:  3' 0    TGA---CTATAGTCGA---------GT-CATC--CGTG 0 5'
w/GU            |||   ||||||||||         ** | *|  |*** BLAST score 178
Target: 5' 2409 ACTACAGATATCAGCTGAACCTCTTTGCGAGGATGTGT 2446/9517 3'

Hit # 8 by hsa-miR-23b in the CDS
Query:  3' 1    ACC-ATTA-GGG-A---CCGTTACACT 1 5'
w/o GU          ||| |  | ||| |   |||||||||| BLAST score 150
Target: 5' 3054 TGGCTGCTGCCCCTGAAGGCAATGTGA 3080/9517 3'
Query:  3' 1    ACC-AT--TAGGGA---CCGTTACACT 1 5'
w/GU            ||| |*  * ||||   |||||||||| BLAST score 170.5
Target: 5' 3054 TGGCTGCTGCCCCTGAAGGCAATGTGA 3080/9517 3'

Hit # 9 by hsa-miR-320 in the CDS
Query:  3' 0    AA----------GCG-----GG----AGAGTTGGGTC-------------------------------GAA---------AA 0 5'
w/o GU          ||          | |     ||    |||||||||||                               |||         || BLAST score 148
Target: 5' 3974 TTGCTACATAAACACATAAACCTGTTTCTCAACCCAGGGATCCTGGAGGCAGTAACCATGCAGCACATCTTCATGAACAATT 4055/9517 3'
Query:  3' 0    AAGCGG-G-------------------AGAGTTGGGTC-----GA 3 5'
w/GU            ||*||* |                   |||||||||||     || BLAST score 163.5
Target: 5' 3973 TTTGCTACATAAACACATAAACCTGTTTCTCAACCCAGGGATCCT 4017/9517 3'

Hit # 10 by hsa-miR-224 in the CDS
Query:  3' 0    ATTTGC---C----------TTG--GTGATCACTG---------------------AAC 0 5'
w/o GU          || ||    |          |||  ||||||||||                     ||| BLAST score 155
Target: 5' 4578 TAGACATCTGCAGGGCCTGTAACAACACTAGTGACAGGAAACATGCAGACTCGATTTTG 4636/9517 3'
Query:  3' 0    ATTTG----C--CTTG---------GTGATCACTG---------------------AAC 0 5'
w/GU            ||*||    |  |**|         ||||||||||                     ||| BLAST score 180
Target: 5' 4578 TAGACATCTGCAGGGCCTGTAACAACACTAGTGACAGGAAACATGCAGACTCGATTTTG 4636/9517 3'

Hit # 11 by hsa-miR-22 in the CDS
Query:  3' 0    TG--TCA---AG--AAGTTGACCGTCGAA 0 5'
w/o GU          ||  ||    ||  ||   |||||||||| BLAST score 140.5
Target: 5' 4966 ACGCAGGGACTCTGTT---CTGGCAGCTT 4991/9517 3'
Query:  3' 0    TGTCAAGAAGTT-----------------------------GACCGTCGAA 0 5'
w/GU            *|*| ||| ||*                             |||||||||| BLAST score 166.5
Target: 5' 4942 GCGGCTCT-CAGCCCGCAATGCCGCACGCAGGGACTCTGTTCTGGCAGCTT 4991/9517 3'

Hit # 12 by hsa-miR-191 in the CDS
Query:  3' 0    TCGACGAAAA-------------------------------------CC-CTAAGGCAA 1 5'
w/o GU          ||||||||||                                     || | || | || BLAST score 137.5
Target: 5' 5112 AGCTGCTTTTCCCAGAGAACACAGACGCCAGAAGGAAATGTGAAAGTGGCGGTTTCATT 5170/9517 3'
Query:  3' 0    TCGACGAAAA-------------------------------------CC-CTAAGGCAA 1 5'
w/GU            ||||||||||                                     || |*||*| || BLAST score 162.5
Target: 5' 5112 AGCTGCTTTTCCCAGAGAACACAGACGCCAGAAGGAAATGTGAAAGTGGCGGTTTCATT 5170/9517 3'

Hit # 13 by mmu-miR-134 in the CDS
Query:  3' 0    AGG--G----AGACCAGTTGG------------T-CAGTGT 0 5'
w/o GU          ||   |    |||||||||||            | |||| | BLAST score 153.5
Target: 5' 5298 TCAGGCAAGTTCTGGTCAACCGTTACTATGGAAACGTCAGA 5338/9517 3'
Query:  3' 0    AG---G---GAGACCAGTTGGTCA--GTGT 0 5'
w/GU            ||   |   *|||||||||||* |  *|** BLAST score 179.5
Target: 5' 5298 TCAGGCAAGTTCTGGTCAACCGTTACTATG 5327/9517 3'

Hit # 14 by mmu-miR-106b in the CDS
Query:  3' 0    TAGA--C---------GTGACAGTCGT 4 5'
w/o GU          | ||  |         ||||||||||| BLAST score 126
Target: 5' 5366 AGCTTTGGCAATGGCCCACTGTCAGCA 5392/9517 3'
Query:  3' 0    T-AGAC---------GTGACAGTCGT 4 5'
w/GU            * |*||         ||||||||||| BLAST score 139
Target: 5' 5367 GCTTTGGCAATGGCCCACTGTCAGCA 5392/9517 3'

Hit # 15 by hsa-miR-33 in the CDS
Query:  3' 0    GTTAC--GTTGATGTTA-----------------CGT 1 5'
w/o GU          ||| |  ||||||||||                 ||| BLAST score 136
Target: 5' 6070 CAA-GACCAACTACAATTTGGTATGTGAGACCCTGCA 6105/9517 3'
Query:  3' 0    GTTAC--GTTGATGTTA---CGTG 0 5'
w/GU            ||| |  ||||||||||   |*|* BLAST score 153
Target: 5' 6070 CAA-GACCAACTACAATTTGGTAT 6092/9517 3'

Hit # 16 by mmu-miR-201 in the CDS
Query:  3' 0    TCTTGTTACGGA---------ATGA----------C--TCAT 0 5'
w/o GU          ||||||||||||         | ||          |  || | BLAST score 150.5
Target: 5' 6357 AGAACAATGCCTCGAAGTTGCTCCTGGCCATCATGGAAAGCA 6398/9517 3'
Query:  3' 0    TCTTGTTACGGA------AT---GACT-----CAT 0 5'
w/GU            ||||||||||||      |*   |||*      |* BLAST score 166.5
Target: 5' 6357 AGAACAATGCCTCGAAGTTGCTCCTGGCCATCATG 6391/9517 3'

Hit # 17 by hsa-miR-199b in the CDS
Query:  3' 0    CTTGTCTATCAGA----------TTTGT-GACCC 0 5'
w/o GU          |||||||||||||           | ||  || | BLAST score 158.5
Target: 5' 6707 GAACAGATAGTCTTTCCCGTGCCCAGCATATGTG 6740/9517 3'
Query:  3' 0    CTTGTCTATCAGA-------T---TTGTG-ACCC 0 5'
w/GU            |||||||||||||       *   |*||* || | BLAST score 188
Target: 5' 6707 GAACAGATAGTCTTTCCCGTGCCCAGCATATGTG 6740/9517 3'

Hit # 18 by hsa-miR-143 in the CDS
Query:  3' 0    ACTCG--AT-GTCACGAAGTAG-AG 1 5'
w/o GU          || ||  || | |||||||||| || BLAST score 153
Target: 5' 8006 TG-GCACTATCTGTGCTTCATCGTC 8029/9517 3'
Query:  3' 0    AC-TCG--ATGT-CACGAAGTAG-A--GT 0 5'
w/GU            || *||  ||*  |||||||||| |  ** BLAST score 164
Target: 5' 8004 TGTGGCACTATCTGTGCTTCATCGTCCTG 8032/9517 3'

Target # 61: >gi|5729898|ref|NM_006611.1| Homo sapiens killer cell lectin-like receptor subfamily A, member 1 (KLRA1), mRNA
CDS: 97 744
Hit # 1 by hsa-miR-145 in the CDS
Query:  3' 0   TTCC---CTA--A---------GGACCCTTTTGAC--CTG 0 5'
w/o GU         ||||   |||  |         |||||||||||||  ||| BLAST score 200
Target: 5' 168 AAGGCCTGATGATACTCAAAGGCCTGGGAAAACTGATGAC 207/1243 3'
Query:  3' 0   TTCC---CTA--A---------GGACCCTTTTGAC--CTG 0 5'
w/GU           ||||   |||  |         |||||||||||||  ||| BLAST score 200
Target: 5' 168 AAGGCCTGATGATACTCAAAGGCCTGGGAAAACTGATGAC 207/1243 3'

Hit # 2 by mmu-miR-204 in the CDS
Query:  3' 0   GT--CCGTATC-------CTACTGTTTC---------------CCTT 0 5'
w/o GU         ||  ||| | |       ||||||||||               || | BLAST score 156.5
Target: 5' 184 CAAAGGCCTGGGAAAACTGATGACAAAGAATTTTCAGTGCCCTGGCA 230/1243 3'
Query:  3' 0   GT--CCGTATC-------CTACTGTTTC--------------------------------------CCTT 0 5'
w/GU           ||  ||| |*|       ||||||||||                                      ||*| BLAST score 170
Target: 5' 184 CAAAGGCCTGGGAAAACTGATGACAAAGAATTTTCAGTGCCCTGGCACCTCATTGCAGTGACTCTTGGGA 253/1243 3'

Hit # 3 by hsa-miR-144 in the CDS
Query:  3' 0   GA---------TCATGTAGTA---------GAT-ATGACAT 0 5'
w/o GU         ||         ||||||||||         | | |||| || BLAST score 155.5
Target: 5' 351 CTGTAGTGAAAAGTACATCATGCAAAATGACAACTACT-TA 390/1243 3'
Query:  3' 0   GA---------TCATGTAGTA---------GAT-ATGACAT 0 5'
w/GU           ||         ||||||||||         | | |||| || BLAST score 155.5
Target: 5' 351 CTGTAGTGAAAAGTACATCATGCAAAATGACAACTACT-TA 390/1243 3'

Hit # 4 by mmu-miR-204 in the CDS
Query:  3' 0   GTC----C-GT---A---TC-------------------CTACTGTTTC-CCTT 0 5'
w/o GU         |||    | ||   |   ||                   ||||||||||  ||| BLAST score 154
Target: 5' 625 CAGACTTGTCAACATTGTAGATCATCCCTTTTGAAGATAGATGACAAAGATGAA 678/1243 3'
Query:  3' 0   GTC----CG-------TATC-------------------CTACTGTTTC-CCTT 0 5'
w/GU           |||    |*       *|||                   ||||||||||  ||| BLAST score 170
Target: 5' 625 CAGACTTGTCAACATTGTAGATCATCCCTTTTGAAGATAGATGACAAAGATGAA 678/1243 3'

Target # 62: >gi|20537882|ref|XM_088951.4| Homo sapiens olfactomedin 3 (OLFM3), mRNA
CDS: 395 1771
Hit # 1 by hsa-miR-136 in the CDS
Query:  3' 0    AG----------GTAGTAGTTT-TGT------T-TA---C-CTCA 0 5'
w/o GU          ||          |||||||||| |||      | ||   | |||| BLAST score 171
Target: 5' 1255 TCAGAGTAATATCATCATCAAATACAGCTTTGATATGGGGAGAGT 1299/3432 3'
Query:  3' 0    A-GGTAGTAGTTT----T---GTT-TACCTC 1 5'
w/GU            | *||||||||||    *   **| ||||*| BLAST score 183.5
Target: 5' 1264 TATCATCATCAAATACAGCTTTGATATGGGG 1294/3432 3'

Hit # 2 by hsa-miR-33 in the CDS
Query:  3' 0    GT-TACGT------TGATGTTACGT 1 5'
w/o GU          || || ||      ||||||||||| BLAST score 148
Target: 5' 1654 CATATCCATGCTTGACTACAATGCA 1678/3432 3'
Query:  3' 0    GT---TACG--TTGATGTTACGT 1 5'
w/GU            *|   ||||  *||||||||||| BLAST score 161.5
Target: 5' 1656 TATCCATGCTTGACTACAATGCA 1678/3432 3'

Hit # 3 by hsa-miR-182 in the 3'UTR
Query:  3' 0    ACACTCAAGATGGTAAC---GGT--T 1 5'
w/o GU          ||| | |||||||||||   |||  | BLAST score 160.5
Target: 5' 2340 TGT-ATTTCTACCATTGTAACCACCA 2364/3432 3'
Query:  3' 0    ACACTCAAGATGGTAAC---------GGTTT 0 5'
w/GU            ||| | |||||||||||         *** * BLAST score 164
Target: 5' 2340 TGT-ATTTCTACCATTGTAACCACCATTGTG 2369/3432 3'

Hit # 4 by mmu-miR-29b in the 3'UTR
Query:  3' 0    TTG-TGACTAAAGT---TT-AC-CACGAT 0 5'
w/o GU          ||| ||||||||||   || || ||  || BLAST score 166
Target: 5' 2587 AACAACTGATTTCATACAACTGAGT--TA 2613/3432 3'
Query:  3' 0    TTG-TGACTAAAGT---TT-AC-C------ACGA-T 0 5'
w/GU            ||| ||||||||||   || || |      ||*| | BLAST score 175.5
Target: 5' 2587 AACAACTGATTTCATACAACTGAGTTACTCTGTTCA 2622/3432 3'

Hit # 5 by hsa-miR-190 in the 3'UTR
Query:  3' 0    TG-------GAT---TATATAGTTTGTATAGT 0 5'
w/o GU          ||       |||   ||||||||||||| ||| BLAST score 186.5
Target: 5' 3086 ACATATAAGCTAACTATATATCAAACATTTCA 3117/3432 3'
Query:  3' 0    TG---GAT---TATATAGTTTGTA---TAGT 0 5'
w/GU            |*   |||   |||||||||||||   ||** BLAST score 191.5
Target: 5' 3090 ATAAGCTAACTATATATCAAACATTTCATTG 3120/3432 3'

Hit # 6 by mmu-miR-203 in the 3'UTR
Query:  3' 0    AGATCACCA-G-------GA-----------TTTGTAAAGT 1 5'
w/o GU          |||| ||   |       ||           |||||||||| BLAST score 143
Target: 5' 3078 TCTA-TGAAACATATAAGCTAACTATATATCAAACATTTCA 3117/3432 3'
Query:  3' 0    AGATCACC----A-G---GA-----------TTTGTAAAGTG 0 5'
w/GU            |||| ||     | *   ||           ||||||||||* BLAST score 157.5
Target: 5' 3078 TCTA-TGAAACATATAAGCTAACTATATATCAAACATTTCAT 3118/3432 3'

Hit # 7 by mmu-miR-29b in the 3'UTR
Query:  3' 0    TTGTGA---C--------TAAAGTTTAC------CA---CG-A-T 0 5'
w/o GU          |||| |   |        ||||||||||      ||   || | | BLAST score 158.5
Target: 5' 3338 AACATTTAAGTGTAATTCATTTCAAATGTCACAAGTAAAGCATCA 3382/3432 3'
Query:  3' 0    TTGTGA---C--------TAAAGTTTAC------CA---CG-A-T 0 5'
w/GU            ||||*|   |        ||||||||||      ||   || | | BLAST score 171
Target: 5' 3338 AACATTTAAGTGTAATTCATTTCAAATGTCACAAGTAAAGCATCA 3382/3432 3'

Target # 63: >gi|16159362|ref|XM_038999.2| Homo sapiens KIAA1301 protein (KIAA1301), mRNA
CDS: 184 4902
Hit # 1 by hsa-miR-193 in the 5'UTR/CDS
Query:  3' 0   GACC-CT-GAAACATCCG-----------------------------G-TCAA 0 5'
w/o GU         |||  || ||||||||||                             | |||| BLAST score 149.5
Target: 5' 141 CTGCAGAGCTTTGTAGGCAGCCAATCCCAGAGAAGCAGACGGGATGGCTAGTT 193/6926 3'
Query:  3' 0   GACC-CT-GAAACATCCG------------------------------GTCAA 0 5'
w/GU           |||  || ||||||||||                              *|||| BLAST score 157.5
Target: 5' 141 CTGCAGAGCTTTGTAGGCAGCCAATCCCAGAGAAGCAGACGGGATGGCTAGTT 193/6926 3'

Hit # 2 by mmu-miR-129b in the CDS
Query:  3' 2   GTTCGGGTCT-GGCG------------------TTTTTC 0 5'
w/o GU         |||||||||| || |                  ||| || BLAST score 149.5
Target: 5' 397 CAAGCCCAGAACCTCATTATCTTCTGGGACATTAAAGAG 435/6926 3'
Query:  3' 0   TTGTTCGGGTCT-------------GG--C----GTTTTTC 0 5'
w/GU           **||||||||||             |*  |    *|||*|| BLAST score 186.5
Target: 5' 395 GGCAAGCCCAGAACCTCATTATCTTCTGGGACATTAAAGAG 435/6926 3'

Hit # 3 by hsa-miR-215 in the CDS
Query:  3' 1   AG------ACAGTTAAGT--ATCCAGT 1 5'
w/o GU         ||      ||||||||||   |||  | BLAST score 132.5
Target: 5' 807 TCTTAAGATGTCAATTCAGCCAGGAAA 833/6926 3'
Query:  3' 1   AG----ACAGTTAAGT------------ATC--CAGTA 0 5'
w/GU           |*    ||||||||||             ||  ||* | BLAST score 136
Target: 5' 809 TTAAGATGTCAATTCAGCCAGGAAAGAAGAGCAGTT-T 845/6926 3'

Hit # 4 by hsa-miR-136 in the CDS
Query:  3' 0   A-GGTAGTAGTT--------------TTG-TT--T-ACCTCA 0 5'
w/o GU         | ||||||||||              ||| ||  | |  ||| BLAST score 155.5
Target: 5' 996 TCCCATCATCAAGCGTTTTCTGGGGAAACTAACCATTCCAGT 1037/6926 3'
Query:  3' 0   A-GGTAGTAGTT-----------------------------------TTGTTTACCTC 1 5'
w/GU           | ||||||||||                                   **| * ||||| BLAST score 161
Target: 5' 996 TCCCATCATCAAGCGTTTTCTGGGGAAACTAACCATTCCAGTCCAGAGGCTGCTGGAG 1053/6926 3'

Hit # 5 by hsa-miR-320 in the CDS
Query:  3' 2    GC-GGGA----GAGTTGGGTC--GA 3 5'
w/o GU          || |||     ||||||||||  || BLAST score 140
Target: 5' 1839 CGGCCCAGAGCCTCAACCCAGTGCT 1863/6926 3'
Query:  3' 2    GC-GGGA----GAGTTGGGTCGAAA 1 5'
w/GU            || |||     ||||||||||*  | BLAST score 144
Target: 5' 1839 CGGCCCAGAGCCTCAACCCAGTGCT 1863/6926 3'

Hit # 6 by hsa-miR-24 in the CDS
Query:  3' 0    GA-------CA--A--GG-------ACGACTTGAC----------------------TC-GGT 0 5'
w/o GU          ||       ||  |  ||       ||||||||||                      || ||| BLAST score 151.5
Target: 5' 1850 CTCAACCCAGTGCTGACCAGGGCAGTGCTGAACTGTGTGGCTCTCAAGAGGTAGATCAGCCCA 1912/6926 3'
Query:  3' 0    GA-------CAAGG-----------ACGACTTGAC---TC---GGT 0 5'
w/GU            ||       || |*           ||||||||||   *|   *|| BLAST score 163.5
Target: 5' 1850 CTCAACCCAGTGCTGACCAGGGCAGTGCTGAACTGTGTGGCTCTCA 1895/6926 3'

Hit # 7 by hsa-miR-194 in the CDS
Query:  3' 0    AGGTGTA---CCT----CAACGACAATGT 0 5'
w/o GU          |||| ||   |||    |||||||||||| BLAST score 188
Target: 5' 2908 TCCAGATCCAGGATCACGTTGCTGTTACA 2936/6926 3'
Query:  3' 0    AGGTGTA---CCT----CAACGACAATGT 0 5'
w/GU            |||| ||   |||    |||||||||||| BLAST score 188
Target: 5' 2908 TCCAGATCCAGGATCACGTTGCTGTTACA 2936/6926 3'

Hit # 8 by mmu-miR-201 in the CDS
Query:  3' 0    TCTTGT-----------------------TACGGAATGA------CTC-AT 0 5'
w/o GU          |||| |                       ||||||||||       || || BLAST score 146
Target: 5' 3612 AGAAGAGATAATGTCGTATGTGCCTCCACATGCCTTACTCCACCCCAGCTA 3662/6926 3'
Query:  3' 0    TC--TTGT----------------TACGGAATGA------CTC-AT 0 5'
w/GU            ||  ||**                ||||||||||       || || BLAST score 153
Target: 5' 3617 AGATAATGTCGTATGTGCCTCCACATGCCTTACTCCACCCCAGCTA 3662/6926 3'

Hit # 9 by hsa-miR-128a in the CDS
Query:  3' 0    T--TTTCT----CT---GG--C----------------CAAGTGACACT 0 5'
w/o GU          |  |||||    ||   ||  |                ||||||||||| BLAST score 166.5
Target: 5' 4261 ATGAAAGACAATGATATCCATGACATCCTAGACCTCACGTTCACTGTGA 4309/6926 3'
Query:  3' 0    TTTTCT----CTG-G----C----------------CAAGTGACACT 0 5'
w/GU            *|||||    ||* *    |                ||||||||||| BLAST score 175.5
Target: 5' 4263 GAAAGACAATGATATCCATGACATCCTAGACCTCACGTTCACTGTGA 4309/6926 3'

Hit # 10 by hsa-miR-22 in the 3'UTR
Query:  3' 0    TGTCAAGAAG------TTGACCGTCG-AA 0 5'
w/o GU          || ||  |||      |||||||||| || BLAST score 157
Target: 5' 5252 AC-GTGGTTCAAGCCAAACTGGCAGCATT 5279/6926 3'
Query:  3' 0    TGTCAAGAA-G--TTGACCGTCG-AA 0 5'
w/GU            ***||||   |  |||||||||| || BLAST score 169
Target: 5' 5254 GTGGTTCAAGCCAAACTGGCAGCATT 5279/6926 3'

Hit # 11 by mmu-miR-126* in the 3'UTR
Query:  3' 0    GCGCA--TGGT--T----------------TTCATTATTA 1 5'
w/o GU          || ||  ||||  |                |||||||||| BLAST score 153.5
Target: 5' 5980 CGTGTCTACCACTACAAGGACTGTGCATCTAAGTAATAAT 6019/6926 3'
Query:  3' 0    GCGCA--TGGT--T----------------TTCATTATTA 1 5'
w/GU            ||*||  ||||  |                |||||||||| BLAST score 166
Target: 5' 5980 CGTGTCTACCACTACAAGGACTGTGCATCTAAGTAATAAT 6019/6926 3'

Hit # 12 by hsa-miR-149 in the 3'UTR
Query:  3' 2    TCACTTCTGTG--------CCTCG-GTCT 0 5'
w/o GU          |||||||||||        | | | |||| BLAST score 154.5
Target: 5' 6242 AGTGAAGACACCACAAATTGAAACTCAGA 6270/6926 3'
Query:  3' 2    TCACTTCTGTG--------C-CTCGGTCT 0 5'
w/GU            |||||||||||        |  | *|||| BLAST score 154.5
Target: 5' 6242 AGTGAAGACACCACAAATTGAAACTCAGA 6270/6926 3'

Hit # 13 by hsa-miR-7 in the 3'UTR
Query:  3' 2    GTTT----------TAGTGATCAGAAGG 1 5'
w/o GU          ||||          |||||||||||| | BLAST score 154.5
Target: 5' 6350 CAAAACTGCATGACATCACTAGTCTTAC 6377/6926 3'
Query:  3' 0    T-TGTTTTAGTGATCAGAA----GGT 0 5'
w/GU            * |**| ||||||||||||    |** BLAST score 179
Target: 5' 6357 GCATGACATCACTAGTCTTACTTCTG 6382/6926 3'

Hit # 14 by hsa-miR-191 in the 3'UTR
Query:  3' 0    TC-----G-----------ACGAAAACCCTAA------G--GCAAC 0 5'
w/o GU          ||     |           |||||||||||||      |  | ||| BLAST score 163.5
Target: 5' 6398 AGGTATTCTTCATTTTAATTGCTTTTGGGATTACTCCACATCTTTG 6443/6926 3'
Query:  3' 0    TCGACGAAAACCCTAA-----------GGCAA 1 5'
w/GU            | *|||||||||||||           **||| BLAST score 184
Target: 5' 6414 AATTGCTTTTGGGATTACTCCACATCTTTGTT 6445/6926 3'

Hit # 15 by mmu-miR-146 in the 3'UTR
Query:  3' 0    TTTG--GGTACCTTAAG----------T-CAA------GAGT 0 5'
w/o GU          || |  |||||||||||          | |||      || | BLAST score 163.5
Target: 5' 6580 AAGCAGCCATGGAATTCCTATTATGGGATGTTGGCAATCTTA 6621/6926 3'
Query:  3' 0    TTTG--GGTACCTTAAG----------T-CAA------GAGT 0 5'
w/GU            ||*|  |||||||||||          | |||      ||*| BLAST score 188.5
Target: 5' 6580 AAGCAGCCATGGAATTCCTATTATGGGATGTTGGCAATCTTA 6621/6926 3'

Target # 64: >gi|29730103|ref|XM_293576.1| Homo sapiens similar to agCP1362 [Anopheles gambiae str. PEST] (LOC344751), mRNA
CDS: 41 2644
Hit # 1 by hsa-miR-222 in the CDS
Query:  3' 0   CTCTGGG-TC--ATC----------G----------------GTCTACATCGA 0 5'
w/o GU         ||||||| ||  | |          |                ||||||||||| BLAST score 181
Target: 5' 162 GAGACCCCAGGGTGGAAGTGAGGATCTATCTTGCATCTCCTACAGATGTAGCT 214/2644 3'
Query:  3' 0   CTCTGGG-TC--ATC---G-----------------------GTCTACATCGA 0 5'
w/GU           ||||||| ||  |*|   *                       ||||||||||| BLAST score 193.5
Target: 5' 162 GAGACCCCAGGGTGGAAGTGAGGATCTATCTTGCATCTCCTACAGATGTAGCT 214/2644 3'

Hit # 2 by hsa-miR-186 in the CDS
Query:  3' 0   TTCGGGTTTTCCTCTT--------------------------A-AGAA-----AC 0 5'
w/o GU         || || ||||||||||                          | ||||     || BLAST score 159
Target: 5' 281 AA-CCAAAAAGGAGAAGCCTCATGCCCATCAGCTCTCATTAATGTCTTATCAATG 334/2644 3'
Query:  3' 0   TTCG-GG------------------------TTTTCCTCTT--------------------------A-AGAA-----AC 0 5'
w/GU           **|* ||                        ||||||||||                          | ||||     || BLAST score 161.5
Target: 5' 255 GGGTACCTAGCTACATTTCCTTCTATAACCAAAAAGGAGAAGCCTCATGCCCATCAGCTCTCATTAATGTCTTATCAATG 334/2644 3'

Hit # 3 by hsa-miR-136 in the CDS
Query:  3' 0   AGG-T--------------------AGTAGTT--T---------------TGTTTACCTC 1 5'
w/o GU         ||| |                    || ||||  |               |||||||||| BLAST score 150.5
Target: 5' 818 TCCGAACAGCTGGATTTAGAGGAGATC-TCAAGGAAAATTTCATTCCTTGACAAATGGAG 876/2644 3'
Query:  3' 0   AGGTAGT-AGTTTTGTTTACCTC 1 5'
w/GU           |*|||*  |**  |||||||||| BLAST score 170
Target: 5' 856 TTCATTCCTTG--ACAAATGGAG 876/2644 3'

Hit # 4 by hsa-miR-101 in the CDS
Query:  3' 0   GAAGTCAATAGTGTC------------ATGACAT 0 5'
w/o GU         ||| |||||||||||            || |  | BLAST score 156
Target: 5' 883 CTTTAGTTATCACAGGTTGGGAACCAATAATTCA 916/2644 3'
Query:  3' 0   GAAGTCAATAGTGTCATGACAT 0 5'
w/GU           |||*||||||||||| **|| * BLAST score 189
Target: 5' 883 CTTTAGTTATCACAG-GTTGGG 903/2644 3'

Hit # 5 by hsa-miR-198 in the CDS
Query:  3' 0    GGATAGAGGG---GAGACC--TG--G 0 5'
w/o GU          ||||||||||   |  |||  ||  | BLAST score 137.5
Target: 5' 1070 CCTATCTCCCTAGCAATGGCCACGGC 1095/2644 3'
Query:  3' 0    GGATAGAGGGG-AG--ACC-----TGG 0 5'
w/GU            ||||||||||*  |  |||     *|| BLAST score 149.5
Target: 5' 1070 CCTATCTCCCTAGCAATGGCCACGGCC 1096/2644 3'

Hit # 6 by hsa-miR-136 in the CDS
Query:  3' 0    AGGTAGTAGTTT------------T-GT--TTACC---TC--A 0 5'
w/o GU          ||||||||||||            | ||  || ||   ||  | BLAST score 167.5
Target: 5' 1355 TCCATCATCAAATACTTGTTGTTTACCAGGAAAGGAAAAGACT 1397/2644 3'
Query:  3' 0    AGGTAGTAGTTT---------------TGTTTACC---TC--A 0 5'
w/GU            ||||||||||||               | *|| ||   ||  | BLAST score 171
Target: 5' 1355 TCCATCATCAAATACTTGTTGTTTACCAGGAAAGGAAAAGACT 1397/2644 3'

Hit # 7 by hsa-miR-142* in the CDS
Query:  3' 0    AGGTA--------------TTTCA---TCCTTTGTGATGT 0 5'
w/o GU          || ||              |||||   ||||||||||||| BLAST score 193
Target: 5' 1830 TCAATGGCTGTGAGGAAGGAAAGTCTCAGGAAACACTACA 1869/2644 3'
Query:  3' 0    A--GGTATTTC--------A---TCCTTTGTGATGT 0 5'
w/GU            |  |**|*|*|        |   ||||||||||||| BLAST score 199.5
Target: 5' 1834 TGGCTGTGAGGAAGGAAAGTCTCAGGAAACACTACA 1869/2644 3'

Target # 65: >gi|37556119|ref|XM_351779.1| Homo sapiens hypothetical protein FLJ32731 (FLJ32731), mRNA
CDS: 1 1902
Hit # 1 by mmu-miR-106b in the CDS
Query:  3' 0   T-A-GACGT-------GACAGTCGTG----------AAA 0 5'
w/o GU         | | |||||       ||||||||||          | | BLAST score 146
Target: 5' 283 AGTGCTGCAGCTGCCTCTGTCAGCACCCAGCACGGATCT 321/4156 3'
Query:  3' 0   TA-GACGT-------GACAGTCGTG----------AAA 0 5'
w/GU           *| |||||       ||||||||||          | | BLAST score 154.5
Target: 5' 284 GTGCTGCAGCTGCCTCTGTCAGCACCCAGCACGGATCT 321/4156 3'

Hit # 2 by hsa-miR-185 in the CDS
Query:  3' 0    CTTGACGGAAAGAGA--------------GGT 0 5'
w/o GU          || ||||||||||||              ||| BLAST score 152.5
Target: 5' 1128 GAGCTGCCTTTCTCTTCGAGACATCACGTCCA 1159/4156 3'
Query:  3' 0    CTTGACGGAAAGAGAGGT 0 5'
w/GU            ||*||||||||||||*|* BLAST score 180
Target: 5' 1128 GAGCTGCCTTTCTCTTCG 1145/4156 3'

Hit # 3 by hsa-miR-214 in the 3'UTR
Query:  3' 0    GACGGACAGA----CAC-GGACGAC-A 0 5'
w/o GU          ||||||||||    ||| | | | | | BLAST score 145.5
Target: 5' 2079 CTGCCTGTCTATTTGTGACTTACAGAT 2105/4156 3'
Query:  3' 0    GACGGACAGA----CAC----------GG----AC---GACA 0 5'
w/GU            ||||||||||    |||          **    ||   *||| BLAST score 167.5
Target: 5' 2079 CTGCCTGTCTATTTGTGACTTACAGATTTGAAATGTAATTGT 2120/4156 3'

Hit # 4 by hsa-miR-214 in the 3'UTR
Query:  3' 0    GACGGACAGACA------------------CG---GACGACA 0 5'
w/o GU          ||||||||||||                   |   || |||| BLAST score 152.5
Target: 5' 2553 CTGCCTGTCTGTCCATCATCTTCCTTCCTCCCTATCT-CTGT 2593/4156 3'
Query:  3' 0    GACGGACAGACA---------------------CGGACGACA 0 5'
w/GU            ||||||||||||                      *|| |||| BLAST score 160.5
Target: 5' 2553 CTGCCTGTCTGTCCATCATCTTCCTTCCTCCCTATCT-CTGT 2593/4156 3'

Hit # 5 by mmu-miR-122b in the 3'UTR
Query:  3' 0    AG-----------TTTGTGGTAACAG------TG--TGAG-GT 0 5'
w/o GU          ||           |||||||||||||      ||  |||| || BLAST score 188
Target: 5' 3594 TCCATTGACATGGAAACACCATTGTCTGGCACACATACTCACA 3636/4156 3'
Query:  3' 0    AG-------TTTGTGGTAACAG--------TGTGAG-GT 0 5'
w/GU            |*       |||||||||||||        |*|||| || BLAST score 198
Target: 5' 3598 TTGACATGGAAACACCATTGTCTGGCACACATACTCACA 3636/4156 3'

Hit # 6 by hsa-miR-198 in the 3'UTR
Query:  3' 0    GGATA--------GAGGGGAGACCT-GG 0 5'
w/o GU          ||| |        |||||||||| | || BLAST score 144.5
Target: 5' 3721 CCTCTTGTCTCCCCTCCCCTCTGAATCC 3748/4156 3'
Query:  3' 0    GGATA-----GAGGGGAGACCTGG 0 5'
w/GU            |*|*|     |||||||||| |*| BLAST score 167
Target: 5' 3724 CTTGTCTCCCCTCCCCTCTGAATC 3747/4156 3'

Hit # 7 by hsa-miR-28 in the 3'UTR
Query:  3' 1    AG-TT----------ATCTGACACTCGA-------------------GGAA 0 5'
w/o GU          || ||          |||||||||||||                   |||| BLAST score 171
Target: 5' 4030 TCTAATTTCCCACGCTAGACTGTGAGCTTCCTAAGGCAAGAATCATGCCTT 4080/4156 3'
Query:  3' 0    GAG-TT----------ATCTGACACTCGAGGAA 0 5'
w/GU            *|| ||          |||||||||||||*| | BLAST score 186
Target: 5' 4029 TTCTAATTTCCCACGCTAGACTGTGAGCTTCCT 4061/4156 3'

Target # 66: >gi|29733241|ref|XM_059997.3| Homo sapiens LOC138724 (LOC138724), mRNA
CDS: 27 3266
Hit # 1 by hsa-miR-198 in the CDS
Query:  3' 0   G--GAT---AGAGGGGAGA-----------------CCT--GG 0 5'
w/o GU         |  ||    ||||||||||                 |||  || BLAST score 133.5
Target: 5' 611 CTTCTGGGGTCTCCCCTCTCTGCACAGCGAGTCCTTGGAGGCC 653/3383 3'
Query:  3' 0   GGAT---AGAGGGGAGA---------CCTGG 0 5'
w/GU           *||*   ||||||||||         | **| BLAST score 155.5
Target: 5' 613 TCTGGGGTCTCCCCTCTCTGCACAGCGAGTC 643/3383 3'

Hit # 2 by hsa-miR-320 in the CDS
Query:  3' 0    A---AGCGG---GA-----GAGTTGGGTC--GA-AAA 0 5'
w/o GU          |   || ||   ||     ||||||||||  || | | BLAST score 158
Target: 5' 1304 TGAGTCTCCAGTCTTGGACCTCAACCCAGAGCTCTCT 1340/3383 3'
Query:  3' 0    A-AG--CGGGA----GAGTTGGGTC--GA-AAA 0 5'
w/GU            | ||  |*|*|    ||||||||||  || | | BLAST score 172.5
Target: 5' 1308 TCTCCAGTCTTGGACCTCAACCCAGAGCTCTCT 1340/3383 3'

Hit # 3 by hsa-miR-105 in the CDS
Query:  3' 0    TGTCCTCAGAC------------------------------TCGTAAACT 0 5'
w/o GU          |||||||||||                              || |  ||| BLAST score 139.5
Target: 5' 2648 ACAGGAGTCTGGCAGGGCGGAACAAGGGTCTCAGAGAGGGGAGAAAATGA 2697/3383 3'
Query:  3' 0    TGTCCTCAGAC----TCGTAAACT 0 5'
w/GU            |||||||||||    *||*   || BLAST score 150.5
Target: 5' 2648 ACAGGAGTCTGGCAGGGCG---GA 2668/3383 3'

Hit # 4 by hsa-miR-125a in the CDS
Query:  3' 0    GTGTC--CA-A---T---------TTCCCAGAGTC-----CCT 0 5'
w/o GU          |||||  || |   |         |||||||||||     ||| BLAST score 180
Target: 5' 2647 CACAGGAGTCTGGCAGGGCGGAACAAGGGTCTCAGAGAGGGGA 2689/3383 3'
Query:  3' 0    GTGTCC--A-AT------------TTCCCAGAGTC---CCT 0 5'
w/GU            ||||||  | |*            |||||||||||   ||* BLAST score 189
Target: 5' 2647 CACAGGAGTCTGGCAGGGCGGAACAAGGGTCTCAGAGAGGG 2687/3383 3'

Hit # 5 by hsa-miR-17-5p in the CDS
Query:  3' 0    TGATGG-ACG--T-----------------------GACATTCGTG-AAA 1 5'
w/o GU          || ||| |||  |                       |||||||||| ||| BLAST score 172
Target: 5' 2941 ACCACCCTGCCCAGGCCAGAAGCCTAGTAGAGGCCCCTGTAAGCACATTT 2990/3383 3'
Query:  3' 0    TGAT----GGA-CGT-------GACATTCGTG-AAA 1 5'
w/GU            *| |    ||| |*|       |||||||||| ||| BLAST score 179
Target: 5' 2955 GCCAGAAGCCTAGTAGAGGCCCCTGTAAGCACATTT 2990/3383 3'

Hit # 6 by hsa-miR-17-5p in the CDS
Query:  3' 0    TGATGGAC---------GTGACATTCGTGA----AAC 0 5'
w/o GU          ||  ||||         |||||||||||||    ||| BLAST score 192.5
Target: 5' 3106 ACATCCTGACCCCTCGCCACTGTAAGCACTGTCCTTG 3142/3383 3'
Query:  3' 0    TGATGGAC---------GTGACATTCGTGA----AAC 0 5'
w/GU            ||  ||||         |||||||||||||    ||| BLAST score 192.5
Target: 5' 3106 ACATCCTGACCCCTCGCCACTGTAAGCACTGTCCTTG 3142/3383 3'

Hit # 7 by hsa-miR-194 in the CDS
Query:  3' 1    GGTGTACCTC-----------------------------AACGACAAT-GT 0 5'
w/o GU          ||||||||||                             || |  ||| || BLAST score 135.5
Target: 5' 3146 CCACATGGAGAAGTATCTCTCCTTCCCTACCCTCAAGGCTT-CCCTTACCA 3195/3383 3'
Query:  3' 1    GGTGTACCTC----------------------------------AA-------CGACAATGT 0 5'
w/GU            ||||||||||                                  ||       |*|  |*|| BLAST score 144.5
Target: 5' 3146 CCACATGGAGAAGTATCTCTCCTTCCCTACCCTCAAGGCTTCCCTTACCAGGGGTT--TGCA 3205/3383 3'

Target # 67: >gi|37541406|ref|XM_049683.6| Homo sapiens KIAA1203 protein (KIAA1203), mRNA
CDS: 1 3390
Hit # 1 by hsa-miR-217 in the CDS
Query:  3' 0    TAGG--T--TAGTC----AAGGACTACGTCAT 0 5'
w/o GU          || |  |  || ||    |||||||||||| | BLAST score 174.5
Target: 5' 1043 ATACTGAGGATGAGTATATTCCTGATGCAGAA 1074/7318 3'
Query:  3' 0    TAGG--TTAGT--C------------AAGGACTACGTC----AT 0 5'
w/GU            ||**  || *|  |            ||||||||||||    |* BLAST score 185.5
Target: 5' 1035 ATTTGTAAATACTGAGGATGAGTATATTCCTGATGCAGAAAGTG 1078/7318 3'

Hit # 2 by mmu-let-7h in the CDS
Query:  3' 0    TTGACATGTG--------T----GATGATGGAG 1 5'
w/o GU          ||||||||||        |    ||  | || | BLAST score 134
Target: 5' 1139 AACTGTACACCAAAGAGGAGCGGCT--TGCCCC 1169/7318 3'
Query:  3' 0    TTGACATGTG------------T-GAT-------G--ATGGA--GT 0 5'
w/GU            ||||||||||            * *|*       *  |*|||  |* BLAST score 168
Target: 5' 1139 AACTGTACACCAAAGAGGAGCGGCTTGCCCCCGATGATGCCTGGCG 1184/7318 3'

Hit # 3 by hsa-miR-17-5p in the CDS
Query:  3' 0    TGATGGAC----------GTGACATTCGT-GA--------------AA--C 0 5'
w/o GU          | | ||||          ||||||||||| ||              ||  | BLAST score 163.5
Target: 5' 1175 A-TGCCTGGCGTTGCCCACACTGTAAGCAGCTGCAGCAGGGAAGCATTACG 1224/7318 3'
Query:  3' 0    TG--ATGGAC----------GTGACATTCGT-GA--------------AA--C 0 5'
w/GU            |*  |*||||          ||||||||||| ||              ||  | BLAST score 185.5
Target: 5' 1172 ATGATGCCTGGCGTTGCCCACACTGTAAGCAGCTGCAGCAGGGAAGCATTACG 1224/7318 3'

Hit # 4 by hsa-miR-188 in the CDS
Query:  3' 0    TGGGAG-GTGGTACGTTCCC----------------T-AC 0 5'
w/o GU          ||| |  |||||||||||||                | || BLAST score 162
Target: 5' 1475 ACCATGGCACCATGCAAGGGGGGCACTACACAGCGTACTG 1514/7318 3'
Query:  3' 0    TG--GGAG--GTGGTACGTTCCCTAC 0 5'
w/GU            |*  || *  |||||||||||||* | BLAST score 177
Target: 5' 1472 ATCACCATGGCACCATGCAAGGGGGG 1497/7318 3'

Hit # 5 by hsa-miR-199a in the CDS
Query:  3' 0    TTGT----CCA---TC--AG------------------ACTTGTGACCC 0 5'
w/o GU          ||||    |||   ||  ||                  ||||||||||| BLAST score 174.5
Target: 5' 1651 AACAGCTCGGTGGCAGGCTCCACAAGTTCTTCCCTGTGTGAACACTGGG 1699/7318 3'
Query:  3' 0    TTGT----CCATC-----AG------------------ACTTGTGACCC 0 5'
w/GU            ||||    |||*|     ||                  ||||||||||| BLAST score 182.5
Target: 5' 1651 AACAGCTCGGTGGCAGGCTCCACAAGTTCTTCCCTGTGTGAACACTGGG 1699/7318 3'

Hit # 6 by hsa-miR-212 in the CDS
Query:  3' 0    CCGGC------ACTGACCTCT---------------------GACAA-T 0 5'
w/o GU          | |||      ||||||||||                     || || | BLAST score 147
Target: 5' 1782 GTCCGTGGAGATGACTGGAGAAAGGAGTGAAGATGATGGAGGCTTTTCA 1830/7318 3'
Query:  3' 0    CCGGC------ACTGACCTCT------G-----ACAAT 0 5'
w/GU            | |||      ||||||||||      *     || |* BLAST score 152.5
Target: 5' 1782 GTCCGTGGAGATGACTGGAGAAAGGAGTGAAGATGATG 1819/7318 3'

Hit # 7 by hsa-miR-149 in the CDS
Query:  3' 0    CCTCACTTCT-GTGCCT-------------C-GGT-----CT 0 5'
w/o GU          ||||||||||  | |||             | |||     || BLAST score 153
Target: 5' 1805 GGAGTGAAGATGATGGAGGCTTTTCAACTCGACCATTTGTGA 1846/7318 3'
Query:  3' 0    CCTCACTTCTG-TGCC-TC--------GGTCT 0 5'
w/GU            ||||||||||* |*|| *|        |* || BLAST score 178.5
Target: 5' 1805 GGAGTGAAGATGATGGAGGCTTTTCAACTCGA 1836/7318 3'

Hit # 8 by hsa-miR-139 in the 3'UTR
Query:  3' 0    TCTGTG--C------ACGTGACATC-T 0 5'
w/o GU          || | |  |      |||||||||| | BLAST score 126.5
Target: 5' 4229 AGGCTCTTGGAATTTTGCACTGTAGTA 4255/7318 3'
Query:  3' 0    TCTGTG--C------ACGTGACATC-T 0 5'
w/GU            ||*| |  |      |||||||||| | BLAST score 139
Target: 5' 4229 AGGCTCTTGGAATTTTGCACTGTAGTA 4255/7318 3'

Hit # 9 by hsa-miR-28 in the 3'UTR
Query:  3' 0    GAGTTA---T------CTGACACTCG------AGG-AA 0 5'
w/o GU          ||| ||   |      ||||||||||      ||| || BLAST score 167.5
Target: 5' 5210 CTCCATGTGATTCATTGACTGTGAGCCTGTTGTCCATT 5247/7318 3'
Query:  3' 0    GAGTTAT---------CTGACACTCG------AGG-AA 0 5'
w/GU            ||| ||*         ||||||||||      ||| || BLAST score 175.5
Target: 5' 5210 CTCCATGTGATTCATTGACTGTGAGCCTGTTGTCCATT 5247/7318 3'

Hit # 10 by hsa-miR-107 in the 3'UTR
Query:  3' 0    AC---TA-------TCGGGACATG----------TTA-CGAC--GA 0 5'
w/o GU          ||   ||       ||||||||||          | | ||||  || BLAST score 166
Target: 5' 5240 TGTCCATTGCACTCAGCCCTGTACTCACTTCTTCACTCGCTGTCCT 5285/7318 3'
Query:  3' 0    AC---TA-------TCGGGACATG----------------------TT---ACGACGA 0 5'
w/GU            ||   ||       ||||||||||                      **   | |||*| BLAST score 168
Target: 5' 5240 TGTCCATTGCACTCAGCCCTGTACTCACTTCTTCACTCGCTGTCCTGGTTTTACTGTT 5297/7318 3'

Hit # 11 by hsa-miR-144 in the 3'UTR
Query:  3' 0    GATCATG---TAGTAGATAT-G----------AC--AT 0 5'
w/o GU          | | ||    |||||||||| |          ||  || BLAST score 142.5
Target: 5' 5471 CAAATAAGAGATCATCTATATCAGGAATTGAATGTCTA 5508/7318 3'
Query:  3' 0    GAT-----C-ATG------------TAGTAGATAT-------GAC--AT 0 5'
w/GU            ||*     | |*|            ||||||||||       *||  |* BLAST score 166.5
Target: 5' 5456 CTGAAAAAGATGCACCAAATAAGAGATCATCTATATCAGGAATTGAATG 5504/7318 3'

Hit # 12 by hsa-miR-224 in the 3'UTR
Query:  3' 0    ATTT----------G------------CCTT--------GGT------GATCACTGAA 1 5'
w/o GU          ||||          |            ||||        |||      |||||||||| BLAST score 170
Target: 5' 5668 TAAATATTTTTATTCTTGAGTTATCTAGGAATGGATTTTCCACGATGTCTAGTGACTT 5725/7318 3'
Query:  3' 0    ATTTG------CCTTGGT--------------GATCACTGAA 1 5'
w/GU            |*|**      ||||* *              |||||||||| BLAST score 181.5
Target: 5' 5684 TGAGTTATCTAGGAATGGATTTTCCACGATGTCTAGTGACTT 5725/7318 3'

Hit # 13 by hsa-miR-130a in the 3'UTR
Query:  3' 3    GAAAATT-----GTAACGTGAC 0 5'
w/o GU          ||| |||     |||||||||| BLAST score 147
Target: 5' 6320 CTTGTAAACATCCATTGCACTG 6341/7318 3'
Query:  3' 0    CG---GGAAAATT-----------------------------GTAACGTGAC 0 5'
w/GU            |*   |*||||||                             |||||||||| BLAST score 168
Target: 5' 6290 GTTTGCTTTTTAAAGTTTTATTCTTGATTTCTTGTAAACATCCATTGCACTG 6341/7318 3'

Hit # 14 by hsa-miR-23b in the 3'UTR
Query:  3' 0    C---ACCATTAGGGA--CCGTTACA-CT 1 5'
w/o GU          |   |||||||||||  |  ||||| || BLAST score 168
Target: 5' 6377 GCCTTGGTAATCCCTTAGATAATGTGGA 6404/7318 3'
Query:  3' 0    C---ACCATTAGGGA--CCGTTACACT 1 5'
w/GU            |   |||||||||||  | *||||||* BLAST score 189
Target: 5' 6377 GCCTTGGTAATCCCTTAGATAATGTGG 6403/7318 3'

Hit # 15 by hsa-miR-24 in the 3'UTR
Query:  3' 0    GACAAGGA-------CGACTTGACT--------------------C-GGT 0 5'
w/o GU          ||  ||||       ||||||||||                    | ||| BLAST score 157
Target: 5' 6462 CTCGTCCTGAAAGCAGCTGAACTGAAAGTAAGTAATAATATGCTGGACCA 6511/7318 3'
Query:  3' 0    GACA-AGGA---------------CGACTTGACT----------------CGGT 0 5'
w/GU            *||| |**|               ||||||||||                ||** BLAST score 180
Target: 5' 6453 TTGTATTTTCTCGTCCTGAAAGCAGCTGAACTGAAAGTAAGTAATAATATGCTG 6506/7318 3'

Hit # 16 by mmu-miR-126* in the 3'UTR
Query:  3' 0    GCGCATGG--TT------------------TTCATTATTA--C 0 5'
w/o GU          | ||| ||  ||                  ||||||||||  | BLAST score 144
Target: 5' 6462 CTCGT-CCTGAAAGCAGCTGAACTGAAAGTAAGTAATAATATG 6503/7318 3'
Query:  3' 0    G-CG-CATGGTT----TTCATTATTA--C 0 5'
w/GU            | || | ||**|    ||||||||||  | BLAST score 161.5
Target: 5' 6475 CAGCTGAACTGAAAGTAAGTAATAATATG 6503/7318 3'

Hit # 17 by hsa-miR-188 in the 3'UTR
Query:  3' 0    T-GGGAG----GTG--G--TA---CGTTCCCTAC 0 5'
w/o GU          | ||||     |||  |  ||   |||||||||| BLAST score 161.5
Target: 5' 6687 AGCCCTGGGAGCACAGCCCATCAAGCAAGGGATG 6720/7318 3'
Query:  3' 0    TGGG------AGGTGGTA--------------------------------CGTTCCCTAC 0 5'
w/GU            *|**      |***|**|                                |||||||||| BLAST score 185
Target: 5' 6661 GCTTCAGGGATTTGCTGTAGCTGAGGAGCCCTGGGAGCACAGCCCATCAAGCAAGGGATG 6720/7318 3'

Hit # 18 by hsa-miR-145 in the 3'UTR
Query:  3' 0    TTCCCTA------------------------------AGGACCCTTTT-------G-ACCT--G 0 5'
w/o GU          |||||||                              |||||||||||       | ||||  | BLAST score 188
Target: 5' 6713 AAGGGATGTGATGGTGTCCTAAATGGAGTGACAGTTCTCCTGGGAAAAGAGATCACGTGGATTC 6776/7318 3'
Query:  3' 0    TTCCCTA------------------------------AGGACCCTTTT-------G-ACCTG 0 5'
w/GU            |||||||                              |||||||||||       | ||||* BLAST score 197
Target: 5' 6713 AAGGGATGTGATGGTGTCCTAAATGGAGTGACAGTTCTCCTGGGAAAAGAGATCACGTGGAT 6774/7318 3'

Target # 68: >gi|27482890|ref|XM_209749.1| Homo sapiens similar to hypothetical protein (L1H 3 region) - human (LOC285764), mRNA
CDS: 526 852
Hit # 1 by hsa-miR-136 in the 5'UTR
Query:  3' 0   AGGTAGT--AGT----------TTTGTTTACCT-C 1 5'
w/o GU         || || |  | |          ||||||||||| | BLAST score 152
Target: 5' 265 TCAATTAAATAAAAGAGGATGCAAACAAATGGAAG 299/1193 3'
Query:  3' 1   GGT-AGT-AGT---------------TTTGTTTACCT-C 1 5'
w/GU           |** ||| |*|               ||||||||||| | BLAST score 169
Target: 5' 261 CTGCTCAATTAAATAAAAGAGGATGCAAACAAATGGAAG 299/1193 3'

Hit # 2 by hsa-miR-223 in the CDS
Query:  3' 4   AT--AAACTGTTTG-ACTGT 0 5'
w/o GU         ||  |||||||||| ||||| BLAST score 152.5
Target: 5' 639 TATTTTTGACAAACCTGACA 658/1193 3'
Query:  3' 4   AT--AAACTGTTTG-ACTGT 0 5'
w/GU           ||  |||||||||| ||||| BLAST score 152.5
Target: 5' 639 TATTTTTGACAAACCTGACA 658/1193 3'

Hit # 3 by mmu-miR-29b in the CDS
Query:  3' 0   TTGTGACT-------------A----------AAG----------TTTACCACGA---T 0 5'
w/o GU         ||| ||||             |          |||          ||||||||||   | BLAST score 161.5
Target: 5' 650 AAC-CTGACAAAAACAAGAAATGGGGAGAGGATTCCCTATTTAATAAATGGTGCTGGGA 707/1193 3'
Query:  3' 0   TTGTGAC---TAAA--GTTTACCACGAT 0 5'
w/GU           |* |*|    ||||  *||||||||||* BLAST score 186.5
Target: 5' 677 AGGATTCCCTATTTAATAAATGGTGCTG 704/1193 3'

Hit # 4 by hsa-miR-145 in the CDS
Query:  3' 1   TC-CCTAAG------------------GACCCTTTTGACC--T-G 0 5'
w/o GU         || ||||||                  |||||||||||||  | | BLAST score 187
Target: 5' 675 AGAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAGC 719/1193 3'
Query:  3' 0   TTC-CCTAAG------------------GACCCTTTTGACC---TG 0 5'
w/GU           *|| ||||||                  |||||||||||||   *| BLAST score 205
Target: 5' 674 GAGAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAGC 719/1193 3'

Hit # 5 by mmu-miR-155 in the 3'UTR
Query:  3' 1    GGGATAGTGTTAATCGTAA-----TT 0 5'
w/o GU          || || || ||||||||||     || BLAST score 150
Target: 5' 1134 CCTTA-CA-AATTAGCATTCCTCCAA 1157/1193 3'
Query:  3' 0    GGGG-AT------AGTG--------------TTAATCGTAA-----TT 0 5'
w/GU            ***| ||      |*|*              ||||||||||     || BLAST score 175
Target: 5' 1110 TTTCATACATAAATTATGTAAGAACCTTACAAATTAGCATTCCTCCAA 1157/1193 3'

Target # 69: >gi|27483172|ref|XM_212618.1| Homo sapiens similar to putative p150 (LOC282945), mRNA
CDS: 49 1230
Hit # 1 by hsa-miR-223 in the CDS
Query:  3' 2   CCATAAACTGTTTG-ACTGT 0 5'
w/o GU         | | |||||||||| ||| | BLAST score 144
Target: 5' 351 GATCTTTGACAAACCTGAGA 370/1627 3'
Query:  3' 2   CCATAAACTGTTTG-ACTGT 0 5'
w/GU           | | |||||||||| ||| | BLAST score 144
Target: 5' 351 GATCTTTGACAAACCTGAGA 370/1627 3'

Hit # 2 by mmu-miR-29b in the CDS
Query:  3' 0   TTGTGACT-------------A----------AAG----------TTTACCACGA---T 0 5'
w/o GU         ||| ||||             |          |||          ||||||||||   | BLAST score 161.5
Target: 5' 362 AAC-CTGAGAAAAACAAGCAATGGGGAAAGGATTCCCTATTTAATAAATGGTGCTGGGA 419/1627 3'
Query:  3' 0   TTGTGAC---------------TAAA--GTTTACCACGAT 0 5'
w/GU           |*|| ||               ||||  *||||||||||* BLAST score 193
Target: 5' 377 AGCAATGGGGAAAGGATTCCCTATTTAATAAATGGTGCTG 416/1627 3'

Hit # 3 by hsa-miR-145 in the CDS
Query:  3' 0   TTCCCTAAG------------------GACCCTTTTGACC--T-G 0 5'
w/o GU         || ||||||                  |||||||||||||  | | BLAST score 193
Target: 5' 387 AAAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTATC 431/1627 3'
Query:  3' 0   TTC---CCTAAG------------------GACCCTTTTGACC--TG 0 5'
w/GU           **|   ||||||                  |||||||||||||  |* BLAST score 204.5
Target: 5' 384 GGGAAAGGATTCCCTATTTAATAAATGGTGCTGGGAAAACTGGCTAT 430/1627 3'

Hit # 4 by mmu-miR-204 in the CDS
Query:  3' 0   GTCCGT---AT------CC-T------------------------ACTGTTTCCC--TT 0 5'
w/o GU         ||||||   ||      || |                        ||||||||||  || BLAST score 172
Target: 5' 696 CAGGCAACCTACAACATGGGAGAAAATTTTTGCAATCTACTCATCTGACAAAGGGCTAA 754/1627 3'
Query:  3' 0   GTCCGT---AT------CCT-------------------------ACTGTTTCCC--TT 0 5'
w/GU           ||||||   ||      ||*                         ||||||||||  || BLAST score 180
Target: 5' 696 CAGGCAACCTACAACATGGGAGAAAATTTTTGCAATCTACTCATCTGACAAAGGGCTAA 754/1627 3'

Target # 70: >gi|30153291|ref|XM_209857.3| Homo sapiens laminin, beta 4 (LAMB4), mRNA
CDS: 81 5366
Hit # 1 by mmu-miR-26b in the 5'UTR
Query:  3' 0  TTGGA------------------TAGGACTTAA-TGAACTT 0 5'
w/o GU        |||||                  |||||||||| | || || BLAST score 169.5
Target: 5' 22 AACCTCTCCACAAAGACTCCCAGATCCTGAATTGAATTTAA 62/5854 3'
Query:  3' 0  TTGGA------------------TAGGACTTAA--TGAA------------------CTT 0 5'
w/GU          |||||                  ||||||||||  |*||                  ||| BLAST score 177
Target: 5' 22 AACCTCTCCACAAAGACTCCCAGATCCTGAATTGAATTTAATCATCTCCTGACAAAAGAA 81/5854 3'

Hit # 2 by hsa-miR-143 in the CDS
Query:  3' 0   ACTCGATG----TC------------ACGAAGTAGA---------------GT 0 5'
w/o GU         | || |||    ||            ||||||||||               || BLAST score 155.5
Target: 5' 259 TCAGTTACCTGGAGGGGGAACAAAAATGCTTCATCTGTGACTCTAGATTTCCA 311/5854 3'
Query:  3' 0   ACTCGATG--TC--------------ACGAAGTAGA-GT 0 5'
w/GU           | ||*|||  *|              |||||||||| ** BLAST score 175
Target: 5' 259 TCAGTTACCTGGAGGGGGAACAAAAATGCTTCATCTGTG 297/5854 3'

Hit # 3 by hsa-miR-191 in the CDS
Query:  3' 0   TCGACGAAAAC----CC--TA--A--G------GC---A-AC 0 5'
w/o GU         |||||||||||    ||  ||  |  |      ||   | || BLAST score 154
Target: 5' 870 AGCTGCTTTTGCAATGGCCATGCTAGCGAATGTCGCCCTATG 911/5854 3'
Query:  3' 0   TCGACGAAAAC----CC--TAAGG-------CAAC 0 5'
w/GU           |||||||||||    ||  || |*       || | BLAST score 164.5
Target: 5' 870 AGCTGCTTTTGCAATGGCCATGCTAGCGAATGTCG 904/5854 3'

Hit # 4 by hsa-miR-210 in the CDS
Query:  3' 0    GTCGGCGACAGTG------------TGC-------GTGTC 0 5'
w/o GU          |||||||||||||            |||       || || BLAST score 166
Target: 5' 1094 CAGCCGCTGTCACTTTGACATGACTACGTACCTGGCA-AG 1132/5854 3'
Query:  3' 0    GTCGGCGACAGTG------------TGCGT--GTC 0 5'
w/GU            |||||||||||||            |||*|  **| BLAST score 187
Target: 5' 1094 CAGCCGCTGTCACTTTGACATGACTACGTACCTGG 1128/5854 3'

Hit # 5 by hsa-miR-145 in the CDS
Query:  3' 1    TCC-CT-----AAGGACCCTT---------T---TGACCTG 0 5'
w/o GU          ||| ||     ||||||||||         |   ||||||| BLAST score 189
Target: 5' 1826 AGGAGAGCCAGTTCCTGGGAACCCTGTTACATGGACTGGAC 1866/5854 3'
Query:  3' 0    TTCCCT-----AAGGACCCTT------------TTGACCTG 0 5'
w/GU            |*| ||     ||||||||||            *||||||| BLAST score 203
Target: 5' 1826 AGGAGAGCCAGTTCCTGGGAACCCTGTTACATGGACTGGAC 1866/5854 3'

Hit # 6 by hsa-miR-182 in the CDS
Query:  3' 0    ACAC-TCAAGATGGTAACGGT---------TT 0 5'
w/o GU          |||| | ||| ||||||||||         || BLAST score 168
Target: 5' 1931 TGTGGACTTC-ACCATTGCCATTCACTATGAA 1961/5854 3'
Query:  3' 0    ACACTCAAGATGGTAACGGT--------TT 0 5'
w/GU            ||||*  |* ||||||||||        *| BLAST score 170.5
Target: 5' 1931 TGTGGACTTCACCATTGCCATTCACTATGA 1960/5854 3'

Hit # 7 by mmu-miR-151 in the CDS
Query:  3' 0    TGGAGTTC--------C----TCGGAGTCAGA-----------TC 0 5'
w/o GU          ||| ||||        |    |||||||||||           || BLAST score 166
Target: 5' 2030 ACC-CAAGACTCTACAGTCAAAGCCTCAGTCTTTTGCCTTACCAG 2073/5854 3'
Query:  3' 0    TGG------AGTTCCTCGGAGTCAGA-----------TC 0 5'
w/GU            ||*      ||||  |||||||||||           || BLAST score 166.5
Target: 5' 2037 ACTCTACAGTCAA--AGCCTCAGTCTTTTGCCTTACCAG 2073/5854 3'

Hit # 8 by hsa-miR-22 in the CDS
Query:  3' 1    GTCAA-------GAA--GTTGACCGTC---GA-A 0 5'
w/o GU          || ||       |||  ||||||||||   || | BLAST score 159
Target: 5' 2720 CAATTGTGGAGGCTTTACAACTGGCAGAAACTGT 2753/5854 3'
Query:  3' 0    TGTCAAG--AA------------GTTGACCGTC---GA-A 0 5'
w/GU            |** |||  ||            ||||||||||   || | BLAST score 166.5
Target: 5' 2714 ATGCTTCAATTGTGGAGGCTTTACAACTGGCAGAAACTGT 2753/5854 3'

Hit # 9 by hsa-miR-27a in the CDS
Query:  3' 0    CCG----CCTTGA-------ATCGGTGACACT--T 0 5'
w/o GU          | |    ||| ||       ||||||||||||  | BLAST score 164.5
Target: 5' 3327 GACCCTAGGACCTCTCAAAGTAGCCACTGTGACCA 3361/5854 3'
Query:  3' 0    C---CGC------CTTG-A-------ATCGGTGACACT--T 0 5'
w/GU            |   |*|      |*|| |       ||||||||||||  | BLAST score 170.5
Target: 5' 3321 GACTGTGACCCTAGGACCTCTCAAAGTAGCCACTGTGACCA 3361/5854 3'

Hit # 10 by hsa-miR-214 in the CDS
Query:  3' 0    GACGGACAGACAC----------------GGA------C--G-ACA 0 5'
w/o GU          |||||||||||||                |||      |  | ||| BLAST score 165.5
Target: 5' 3708 CTGCCTGTCTGTGAGGCAGACTTCAAAGACCTCAGAGGGAACGTGT 3753/5854 3'
Query:  3' 0    GACGGACAGACAC-------GGA----C--GA----------CA 0 5'
w/GU            |||||||||||||       |*|    |  ||          || BLAST score 166.5
Target: 5' 3708 CTGCCTGTCTGTGAGGCAGACTTCAAAGACCTCAGAGGGAACGT 3751/5854 3'

Hit # 11 by hsa-miR-320 in the CDS
Query:  3' 1    AG---C-GGGAGAGTTG------------------GG----TCG----A---AA-A 0 5'
w/o GU          ||   | ||||||||||                  ||    |||    |   || | BLAST score 147
Target: 5' 4311 TCCCTGACCCTCTCAACGAATGCCCTCCAAAAAGCCCAGGAAGCAAAATCCATTAT 4366/5854 3'
Query:  3' 1    AG---C-GGGAGAGTTG------------------GG----TC---------GAAAA 0 5'
w/GU            ||   | ||||||||||                  ||    ||         *| || BLAST score 150
Target: 5' 4311 TCCCTGACCCTCTCAACGAATGCCCTCCAAAAAGCCCAGGAAGCAAAATCCATTATT 4367/5854 3'

Hit # 12 by mmu-miR-201 in the CDS
Query:  3' 0    TC--------TTGTTACGGAATG---ACTC 2 5'
w/o GU          ||        |||||||||||||   |||| BLAST score 168.5
Target: 5' 4433 AGTCTCCAAAAACAATGCCTTACAGCTGAG 4462/5854 3'
Query:  3' 0    TC--------TTGTTACGGAATG---ACTCAT 0 5'
w/GU            ||        |||||||||||||   |||| * BLAST score 176
Target: 5' 4433 AGTCTCCAAAAACAATGCCTTACAGCTGAGGG 4464/5854 3'

Hit # 13 by hsa-miR-125a in the CDS
Query:  3' 1    TGTCCAATTT-C-CCAGAGTC--CCT 0 5'
w/o GU          |||||||||| |  |   |||  ||| BLAST score 144
Target: 5' 4699 ACAGGTTAAATGAAGAAGCAGATGGA 4724/5854 3'
Query:  3' 1    TGTCCAATTT-------------CC-C---------AGAGTCCCT 0 5'
w/GU            ||||||||||             || |         |*|**| || BLAST score 172
Target: 5' 4699 ACAGGTTAAATGAAGAAGCAGATGGAGCCCAAAAGCTTTTGGTGA 4743/5854 3'

Hit # 14 by hsa-miR-186 in the CDS
Query:  3' 0    T---TCGGGTTTTC------------------------------C-TC---T-TAAGA-AA 1 5'
w/o GU          |   ||||||||||                              | ||   | ||||| || BLAST score 152.5
Target: 5' 4720 ATGGAGCCCAAAAGCTTTTGGTGAAGGCCAAAGCAGCTGAGAAAGCAGCAAATATTCTATT 4780/5854 3'
Query:  3' 0    TTCGGGTTTTC------------------------------C-TC---T-TAAGA-AA 1 5'
w/GU            *||||||||||                              | ||   | ||||| || BLAST score 162
Target: 5' 4723 GAGCCCAAAAGCTTTTGGTGAAGGCCAAAGCAGCTGAGAAAGCAGCAAATATTCTATT 4780/5854 3'

Hit # 15 by mmu-miR-203 in the 3'UTR
Query:  3' 0    AGATCAC----------------CA--------GGATTTGTAA---------AGTG 0 5'
w/o GU          |||| |                 ||        ||||||||||         || | BLAST score 152
Target: 5' 5675 TCTACTAACTAATAATCATTTCAGTCAGATAAACCTAAACATTAAATAAATATCTC 5730/5854 3'
Query:  3' 0    AGA-TCAC-C-A---GGATTTGTAA---A---GTG 0 5'
w/GU            |*| |||  | |   ||||||||||   |   *|* BLAST score 163.5
Target: 5' 5693 TTTCAGTCAGATAAACCTAAACATTAAATAAATAT 5727/5854 3'

Target # 71: >gi|34916035|ref|NM_194303.1| Homo sapiens chromosome 10 open reading frame 39 (C10orf39), mRNA
CDS: 38 1054
Hit # 1 by hsa-miR-136 in the CDS
Query:  3' 3   TAGT-----------------AGTTTTGTTTACCTC 1 5'
w/o GU         ||||                 || |||||||||||| BLAST score 155
Target: 5' 249 ATCAAGAGCTTGTGGAAAAGATC-AAACAAATGGAG 283/5006 3'
Query:  3' 0   A-GGT------AGT-----AGT-----------TTTGTTTACCTC 1 5'
w/GU           | ||*      |||     |**           |||||||||||| BLAST score 176.5
Target: 5' 239 TACCGGAGAAATCAAGAGCTTGTGGAAAAGATCAAACAAATGGAG 283/5006 3'

Hit # 2 by hsa-miR-217 in the 3'UTR
Query:  3' 0    TAGGT-----------TA--------GTCAAGGACTA-------CG-TC-AT 0 5'
w/o GU          |||||           ||        |||||||||||       || || || BLAST score 186
Target: 5' 3146 ATCCATTTCTGTTGTCATTCAAGCCACAGTTCCTGATTTACTCGGCAAGATA 3197/5006 3'
Query:  3' 0    TAGGTTA---GTCAAGGACTA-------CG-TC-AT 0 5'
w/GU            ||*|||    |||||||||||       || || || BLAST score 189.5
Target: 5' 3162 ATTCAAGCCACAGTTCCTGATTTACTCGGCAAGATA 3197/5006 3'

Hit # 3 by hsa-miR-10a in the 3'UTR
Query:  3' 1    TGTT-T------------------AAGCCTAGAT--------GTCCCAT 0 5'
w/o GU          |||| |                  ||||||||||        ||| | | BLAST score 157.5
Target: 5' 3529 ACAACAGCTGCATGGGCCAGCTGTTTCGGATCTAAAGATGTGCAGTGAA 3577/5006 3'
Query:  3' 0    GTGTTT--------AAGCCTAGATGTC-CCAT 0 5'
w/GU            ||****        |||||||||| ||  ||* BLAST score 184.5
Target: 5' 3539 CATGGGCCAGCTGTTTCGGATCTAAAGATGTG 3570/5006 3'

Hit # 4 by hsa-miR-197 in the 3'UTR
Query:  3' 2    AC------CCA---CCTCTTCCAC----------C-ACTT 0 5'
w/o GU          ||      ||    ||||||||||          | |||| BLAST score 145.5
Target: 5' 3794 TGTATATAGGAACGGGAGAAGGTGCAAGGAATGTGCTGAA 3833/5006 3'
Query:  3' 0    CG-AC------CCA---CCTCTTCCAC--------CAC--TT 0 5'
w/GU            |* ||      ||    ||||||||||        |||  *| BLAST score 157.5
Target: 5' 3791 GTATGTATATAGGAACGGGAGAAGGTGCAAGGAATGTGCTGA 3832/5006 3'

Hit # 5 by hsa-miR-1d in the 3'UTR
Query:  3' 2    AT-GTAT-----GAAGAAATGTA----------A--GGT 0 5'
w/o GU          || ||||     |||||||||||          |  ||| BLAST score 169
Target: 5' 3933 TATCATAGGCACCTTCTTTACATCTGATTACAATACCCA 3971/5006 3'
Query:  3' 0    TTATG-TA-T------------------------GAAGAAATGTA-A--GGT 0 5'
w/GU            *|||* || *                        ||||||||||| |  **| BLAST score 175.5
Target: 5' 3911 GATATCATTGTTTTCACTCGTCTATCATAGGCACCTTCTTTACATCTGATTA 3962/5006 3'

Hit # 6 by hsa-miR-101 in the 3'UTR
Query:  3' 0    GAA----G----TC--------------AATAGTGTCATGACAT 0 5'
w/o GU          |||    |    ||              ||||||||||| || | BLAST score 160
Target: 5' 4600 CTTGAAACCCTGAGAGAGAGTGTGTGTTTTATCACAGTAATGGA 4643/5006 3'
Query:  3' 0    GA--AGT-------C----------------AATAGTGTCAT--------------------------------GACAT 0 5'
w/GU            ||  |**       |                |||||||||||                                *|||* BLAST score 159.5
Target: 5' 4597 CTCCTTGAAACCCTGAGAGAGAGTGTGTGTTTTATCACAGTAATGGAATTCAGTTTAGCCTCAGGAAACTCATATTGTG 4675/5006 3'

Hit # 7 by mmu-miR-146 in the 3'UTR
Query:  3' 0    TTTGGG-----------------------------TACCTTAAGTCAA----GAGT 0 5'
w/o GU          ||||||                             |||||||||||||    |||| BLAST score 197.5
Target: 5' 4604 AAACCCTGAGAGAGAGTGTGTGTTTTATCACAGTAATGGAATTCAGTTTAGCCTCA 4659/5006 3'
Query:  3' 0    TTTGGG-----------------------------TACCTTAAGTCAA----GAGT 0 5'
w/GU            ||||||                             |||||||||||||    |||| BLAST score 197.5
Target: 5' 4604 AAACCCTGAGAGAGAGTGTGTGTTTTATCACAGTAATGGAATTCAGTTTAGCCTCA 4659/5006 3'

Target # 72: >gi|4504606|ref|NM_001550.1| Homo sapiens interferon-related developmental regulator 1 (IFRD1), mRNA
CDS: 220 1581
Hit # 1 by hsa-miR-186 in the CDS
Query:  3' 0   TT-CGGG-------T-------------------------TTTCCTCTTA-AGAAA 1 5'
w/o GU         || || |       |                         ||||||||||  |||| BLAST score 146
Target: 5' 541 AATGCACTGGCTTCAAAAATGCTGTATGAATTTATTCTGGAAAGGAGAATGACTTT 596/1791 3'
Query:  3' 0   TTCGGGT------TTTCCTCTTA-AGAAA 1 5'
w/GU           *| ***|      ||||||||||  |||| BLAST score 175.5
Target: 5' 568 GAATTTATTCTGGAAAGGAGAATGACTTT 596/1791 3'

Hit # 2 by hsa-miR-143 in the CDS
Query:  3' 0   AC-TCG--------ATGTCACGAAGTAGAGT 0 5'
w/o GU         || |||        ||||||||||||| ||| BLAST score 187
Target: 5' 916 TGCAGCACTCCTAATACAGTGCTTCATATCA 946/1791 3'
Query:  3' 0   AC-TCG--------ATGTCACGAAGTAGAGT 0 5'
w/GU           || |||        ||||||||||||| ||| BLAST score 187
Target: 5' 916 TGCAGCACTCCTAATACAGTGCTTCATATCA 946/1791 3'

Hit # 3 by hsa-miR-189 in the CDS
Query:  3' 0   TG--AC----TATAGTCGAG------TCAT-CC-GTG 0 5'
w/o GU         ||  ||    ||||||||||       | | || ||| BLAST score 158
Target: 5' 931 ACAGTGCTTCATATCAGCTCTCTTCTTGCATGGACAC 967/1791 3'
Query:  3' 0   TG--AC----TATAGTCGAG---------TCATCCGTG 0 5'
w/GU           ||  ||    ||||||||||         | |*| ||| BLAST score 167.5
Target: 5' 931 ACAGTGCTTCATATCAGCTCTCTTCTTGCA-TGGACAC 967/1791 3'

Hit # 4 by hsa-miR-186 in the CDS/3'UTR
Query:  3' 0    TTCG-----GGTTT---T--------------------------------CCTCTTAAGAA----------------AC 0 5'
w/o GU          ||||     |||||   |                                |||||||||||                || BLAST score 170
Target: 5' 1517 AAGCTCGAACCAAAGCTAGAAGCAAATGTCGAGATAAGAGAGCAGATGTTGGAGAATTCTTCTAGATTTTCAGAACTTG 1595/1791 3'
Query:  3' 0    TTCG-----GGTTTT----------------CCTCTTAAGAA----------------AC 0 5'
w/GU            ||||     *|*|*|                |||||||||||                || BLAST score 187.5
Target: 5' 1536 AAGCAAATGTCGAGATAAGAGAGCAGATGTTGGAGAATTCTTCTAGATTTTCAGAACTTG 1595/1791 3'