miRNA display CGI


Results 1 - 20 of 23 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
23470 3' -57.7 NC_005259.1 + 59319 0.66 0.631272
Target:  5'- gCGGCGaGCUcagccucGCguuucgcuaccgcauAGUCgUCGGUGGGAUCg -3'
miRNA:   3'- aGCCGC-CGA-------UG---------------UCGG-AGCCACUCUAG- -5'
23470 3' -57.7 NC_005259.1 + 1236 0.66 0.628058
Target:  5'- -aGGaCGGCUGCaagaccGGCCUCGGcaucaccucGGAUCa -3'
miRNA:   3'- agCC-GCCGAUG------UCGGAGCCac-------UCUAG- -5'
23470 3' -57.7 NC_005259.1 + 64213 0.67 0.595968
Target:  5'- cUCGcCGGUcgGCAGCC-CGGUaucGGGGUCg -3'
miRNA:   3'- -AGCcGCCGa-UGUCGGaGCCA---CUCUAG- -5'
23470 3' -57.7 NC_005259.1 + 58797 0.67 0.595968
Target:  5'- -aGGCGGUgauuGCCUCGGcGGGcUCg -3'
miRNA:   3'- agCCGCCGauguCGGAGCCaCUCuAG- -5'
23470 3' -57.7 NC_005259.1 + 50514 0.67 0.594902
Target:  5'- gCGGUGcGCUGCAccucgacgcgcucGCCUCGGgcGAGGa- -3'
miRNA:   3'- aGCCGC-CGAUGU-------------CGGAGCCa-CUCUag -5'
23470 3' -57.7 NC_005259.1 + 46441 0.67 0.585319
Target:  5'- aUGGUGGCaaGCuGCugCUCGGUGAGGcUCa -3'
miRNA:   3'- aGCCGCCGa-UGuCG--GAGCCACUCU-AG- -5'
23470 3' -57.7 NC_005259.1 + 19963 0.67 0.585319
Target:  5'- aCGGCGGCUcgGCGGUgUgGGUGcccGUCu -3'
miRNA:   3'- aGCCGCCGA--UGUCGgAgCCACuc-UAG- -5'
23470 3' -57.7 NC_005259.1 + 40582 0.67 0.585319
Target:  5'- gUCGGCGGCUcgcacCAGCacaUCGuUGuAGGUCu -3'
miRNA:   3'- -AGCCGCCGAu----GUCGg--AGCcAC-UCUAG- -5'
23470 3' -57.7 NC_005259.1 + 52382 0.67 0.574706
Target:  5'- --aGCGGCUGCGcagccuGCCUCGGgccaucGAGGUg -3'
miRNA:   3'- agcCGCCGAUGU------CGGAGCCa-----CUCUAg -5'
23470 3' -57.7 NC_005259.1 + 58942 0.67 0.574706
Target:  5'- gCGGUGGCagcguCGGCCUUGGccaGcAGGUCg -3'
miRNA:   3'- aGCCGCCGau---GUCGGAGCCa--C-UCUAG- -5'
23470 3' -57.7 NC_005259.1 + 67900 0.67 0.564139
Target:  5'- uUCGGCuGUg--GGUCUCGGcGAGGUCa -3'
miRNA:   3'- -AGCCGcCGaugUCGGAGCCaCUCUAG- -5'
23470 3' -57.7 NC_005259.1 + 41637 0.67 0.542125
Target:  5'- gUGGCGGUgccggucUGCgGGCgCUCGGUGAgcggGAUCu -3'
miRNA:   3'- aGCCGCCG-------AUG-UCG-GAGCCACU----CUAG- -5'
23470 3' -57.7 NC_005259.1 + 27093 0.68 0.522457
Target:  5'- gCGGCGGCU---GCCaugCGGUGGGcuguGUCa -3'
miRNA:   3'- aGCCGCCGAuguCGGa--GCCACUC----UAG- -5'
23470 3' -57.7 NC_005259.1 + 19840 0.68 0.522457
Target:  5'- gCGGCuGCUGCcGCgCUCGGUGuGGcgcUCg -3'
miRNA:   3'- aGCCGcCGAUGuCG-GAGCCACuCU---AG- -5'
23470 3' -57.7 NC_005259.1 + 23618 0.68 0.491992
Target:  5'- gUGGCGGCagccagACGG-CUCGGUGuGGUUu -3'
miRNA:   3'- aGCCGCCGa-----UGUCgGAGCCACuCUAG- -5'
23470 3' -57.7 NC_005259.1 + 17361 0.68 0.482019
Target:  5'- gUCGGCGGCU-CGGCgCU-GGUcGuGGUCg -3'
miRNA:   3'- -AGCCGCCGAuGUCG-GAgCCA-CuCUAG- -5'
23470 3' -57.7 NC_005259.1 + 13117 0.7 0.424398
Target:  5'- cUCGGCGGCUACgaccAGCgCaCGGUGuucggcucGAUCa -3'
miRNA:   3'- -AGCCGCCGAUG----UCG-GaGCCACu-------CUAG- -5'
23470 3' -57.7 NC_005259.1 + 783 0.7 0.406122
Target:  5'- -aGGCGGCUGC--CCUCGGUuGGGUg -3'
miRNA:   3'- agCCGCCGAUGucGGAGCCAcUCUAg -5'
23470 3' -57.7 NC_005259.1 + 8369 0.7 0.379655
Target:  5'- cUCGGCGGCggccuCGGCaUCGGcGAGAg- -3'
miRNA:   3'- -AGCCGCCGau---GUCGgAGCCaCUCUag -5'
23470 3' -57.7 NC_005259.1 + 49677 0.71 0.354369
Target:  5'- cUCGGCcuGGUaguCGGCCucgcgcucgcugUCGGUGAGAUCc -3'
miRNA:   3'- -AGCCG--CCGau-GUCGG------------AGCCACUCUAG- -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.