miRNA display CGI


Results 1 - 20 of 57 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
7348 3' -51.4 NC_001900.1 + 23487 0.71 0.625853
Target:  5'- cCACGCgGGggcagcGGCUGUCGAAGUCUg-- -3'
miRNA:   3'- aGUGCGgCU------UUGGCAGCUUCAGGuuc -5'
7348 3' -51.4 NC_001900.1 + 25252 0.66 0.871881
Target:  5'- -aGCGCCGAuAGCCGacCGGAGcCCGu- -3'
miRNA:   3'- agUGCGGCU-UUGGCa-GCUUCaGGUuc -5'
7348 3' -51.4 NC_001900.1 + 21630 0.66 0.879835
Target:  5'- cCGCGUCGAAcgugacuCCGUCGAGGcgCUGAu -3'
miRNA:   3'- aGUGCGGCUUu------GGCAGCUUCa-GGUUc -5'
7348 3' -51.4 NC_001900.1 + 43403 0.67 0.863664
Target:  5'- --uCGCUGAGugCGUUGAuGUCUggGc -3'
miRNA:   3'- aguGCGGCUUugGCAGCUuCAGGuuC- -5'
7348 3' -51.4 NC_001900.1 + 47348 0.69 0.737264
Target:  5'- cUCAUGCCcuugggcuuGAcGCCGUCGAAcUCCAGc -3'
miRNA:   3'- -AGUGCGG---------CUuUGGCAGCUUcAGGUUc -5'
7348 3' -51.4 NC_001900.1 + 4405 0.7 0.682192
Target:  5'- cUguCGCCGAGGCgGUCGAGGUaUggGa -3'
miRNA:   3'- -AguGCGGCUUUGgCAGCUUCAgGuuC- -5'
7348 3' -51.4 NC_001900.1 + 24153 0.7 0.670979
Target:  5'- -aGCGCC---GCCGUCGuAGGUCCGGu -3'
miRNA:   3'- agUGCGGcuuUGGCAGC-UUCAGGUUc -5'
7348 3' -51.4 NC_001900.1 + 47220 0.7 0.670979
Target:  5'- gCAgGCCGAGGCCGUCacccGGcuuUCCGGGg -3'
miRNA:   3'- aGUgCGGCUUUGGCAGcu--UC---AGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 23351 0.71 0.659727
Target:  5'- aUCGuCGUCGGcaacaccaaGACCGUC-AGGUCCAAGc -3'
miRNA:   3'- -AGU-GCGGCU---------UUGGCAGcUUCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 24551 0.71 0.659727
Target:  5'- aCGCGCCGAccGCCGUgacCGGAGUCa--- -3'
miRNA:   3'- aGUGCGGCUu-UGGCA---GCUUCAGguuc -5'
7348 3' -51.4 NC_001900.1 + 17470 0.66 0.901362
Target:  5'- ---gGCCGAAccgccagaagcucACCGagcgUGAGGUCCGGGa -3'
miRNA:   3'- agugCGGCUU-------------UGGCa---GCUUCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 46619 0.71 0.603281
Target:  5'- aCGCaGCCGggGCCGUCGAccucacacAG-CCAc- -3'
miRNA:   3'- aGUG-CGGCuuUGGCAGCU--------UCaGGUuc -5'
7348 3' -51.4 NC_001900.1 + 38747 0.71 0.603281
Target:  5'- gUCACGCC-AGACCGUCuccaugcgGAGcauGUCCGGGg -3'
miRNA:   3'- -AGUGCGGcUUUGGCAG--------CUU---CAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 27732 0.72 0.558524
Target:  5'- aCGCGCCGAAcaCGUCGGaguagagcgGGUUCAGGa -3'
miRNA:   3'- aGUGCGGCUUugGCAGCU---------UCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 18904 0.72 0.558524
Target:  5'- cCugGCCGAGAUgGUCcaGGAGgCCAAGa -3'
miRNA:   3'- aGugCGGCUUUGgCAG--CUUCaGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 37154 0.73 0.525576
Target:  5'- uUCuuGUCGAAACCGcCGAucAGUUCGAGg -3'
miRNA:   3'- -AGugCGGCUUUGGCaGCU--UCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 45620 0.73 0.514753
Target:  5'- --gUGUCGguGCCGUUGAGGUUCAGGg -3'
miRNA:   3'- aguGCGGCuuUGGCAGCUUCAGGUUC- -5'
7348 3' -51.4 NC_001900.1 + 17241 0.74 0.48286
Target:  5'- cUCGC-CCGAGACC-UCGggGUcgCCAAGg -3'
miRNA:   3'- -AGUGcGGCUUUGGcAGCuuCA--GGUUC- -5'
7348 3' -51.4 NC_001900.1 + 39303 0.74 0.45195
Target:  5'- cCGCGCCGAGcCCGUgGggGUCg--- -3'
miRNA:   3'- aGUGCGGCUUuGGCAgCuuCAGguuc -5'
7348 3' -51.4 NC_001900.1 + 14683 0.79 0.243481
Target:  5'- aUCACGCUGGAGCCGUgGGAGcCCu-- -3'
miRNA:   3'- -AGUGCGGCUUUGGCAgCUUCaGGuuc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.