miRNA display CGI


Results 1 - 20 of 40 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
24399 3' -48.4 NC_005264.1 + 5420 0.67 0.99876
Target:  5'- aCGCGGCaUCUGUCucggcguCGccGCUCUCGc -3'
miRNA:   3'- cGUGCUGcAGAUAGu------GUuuCGAGAGC- -5'
24399 3' -48.4 NC_005264.1 + 5532 0.78 0.742897
Target:  5'- cCGCGGCGUCUcgCGCGGAGCggguuUCUCu -3'
miRNA:   3'- cGUGCUGCAGAuaGUGUUUCG-----AGAGc -5'
24399 3' -48.4 NC_005264.1 + 12590 0.67 0.998499
Target:  5'- uGCGaagUGGCGUCUuuGUUGCGAGGUUaCUCGu -3'
miRNA:   3'- -CGU---GCUGCAGA--UAGUGUUUCGA-GAGC- -5'
24399 3' -48.4 NC_005264.1 + 34980 0.68 0.997419
Target:  5'- uCGCGACGUUUGUCguguuccgugccGCGAgcGGCgCUCGa -3'
miRNA:   3'- cGUGCUGCAGAUAG------------UGUU--UCGaGAGC- -5'
24399 3' -48.4 NC_005264.1 + 35305 0.69 0.996022
Target:  5'- uCACGACG-CUAUCACGuaugacauggaaacgGGGCUaUCGa -3'
miRNA:   3'- cGUGCUGCaGAUAGUGU---------------UUCGAgAGC- -5'
24399 3' -48.4 NC_005264.1 + 35899 0.68 0.99639
Target:  5'- gGCGUGGUGUCgggGUCGCu-GGCUCUCGc -3'
miRNA:   3'- -CGUGCUGCAGa--UAGUGuuUCGAGAGC- -5'
24399 3' -48.4 NC_005264.1 + 36172 0.69 0.992288
Target:  5'- aGCGCGACGggacgAUCGCAAucuacGGCUCa-- -3'
miRNA:   3'- -CGUGCUGCaga--UAGUGUU-----UCGAGagc -5'
24399 3' -48.4 NC_005264.1 + 38043 0.66 0.999325
Target:  5'- uGCACGACG---GUCGCGuGGgUCUCc -3'
miRNA:   3'- -CGUGCUGCagaUAGUGUuUCgAGAGc -5'
24399 3' -48.4 NC_005264.1 + 43160 0.67 0.999169
Target:  5'- cCGCGuCGUUgAUCAgcCcGAGCUCUCGa -3'
miRNA:   3'- cGUGCuGCAGaUAGU--GuUUCGAGAGC- -5'
24399 3' -48.4 NC_005264.1 + 45943 0.71 0.976423
Target:  5'- uGCAUGACGUCguuugagCACGAGGCUgC-CGu -3'
miRNA:   3'- -CGUGCUGCAGaua----GUGUUUCGA-GaGC- -5'
24399 3' -48.4 NC_005264.1 + 48688 0.66 0.999564
Target:  5'- gGCGCGA-GUCUgcucGUCGCGGucGCUCgCGg -3'
miRNA:   3'- -CGUGCUgCAGA----UAGUGUUu-CGAGaGC- -5'
24399 3' -48.4 NC_005264.1 + 49304 0.66 0.999325
Target:  5'- aGCACGACcUCUcgUACAAGGaC-CUCc -3'
miRNA:   3'- -CGUGCUGcAGAuaGUGUUUC-GaGAGc -5'
24399 3' -48.4 NC_005264.1 + 51997 0.66 0.999652
Target:  5'- uGCG-GACGUCgcgCGCGGAGCgaccccgCUCa -3'
miRNA:   3'- -CGUgCUGCAGauaGUGUUUCGa------GAGc -5'
24399 3' -48.4 NC_005264.1 + 54341 0.7 0.988433
Target:  5'- cGCGCGGCGUUUAUgGC-GAGC-CUUa -3'
miRNA:   3'- -CGUGCUGCAGAUAgUGuUUCGaGAGc -5'
24399 3' -48.4 NC_005264.1 + 64433 0.66 0.999325
Target:  5'- gGCgAUGACGUCUGcCGC--GGCUCUa- -3'
miRNA:   3'- -CG-UGCUGCAGAUaGUGuuUCGAGAgc -5'
24399 3' -48.4 NC_005264.1 + 66352 0.7 0.985129
Target:  5'- uGCACGACGcucgccUCUAUCACGAAcGCga-CGg -3'
miRNA:   3'- -CGUGCUGC------AGAUAGUGUUU-CGagaGC- -5'
24399 3' -48.4 NC_005264.1 + 67555 0.68 0.99694
Target:  5'- -gGCGGCGUCUcucUCACuGAGCcacugCUCGu -3'
miRNA:   3'- cgUGCUGCAGAu--AGUGuUUCGa----GAGC- -5'
24399 3' -48.4 NC_005264.1 + 68910 0.67 0.998192
Target:  5'- uGCGCG-CGaaUGUgGCGAAGCUUUCc -3'
miRNA:   3'- -CGUGCuGCagAUAgUGUUUCGAGAGc -5'
24399 3' -48.4 NC_005264.1 + 73841 0.66 0.999683
Target:  5'- gGCGCGACGaacggaauucuguguUCccgGUCACuGAGCUCa-- -3'
miRNA:   3'- -CGUGCUGC---------------AGa--UAGUGuUUCGAGagc -5'
24399 3' -48.4 NC_005264.1 + 74504 0.66 0.999325
Target:  5'- uGCGCGGCugguggauGUCUAUCAUcagGGAGUuauUCUCu -3'
miRNA:   3'- -CGUGCUG--------CAGAUAGUG---UUUCG---AGAGc -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.