miRNA display CGI


Results 1 - 20 of 45 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
23346 3' -55.8 NC_005259.1 + 4683 0.66 0.79326
Target:  5'- uGGCUCGGGCcgacagcuCGGCcc-CGUgGUGCg -3'
miRNA:   3'- gCUGGGCUCGu-------GCCGuauGCAgCACG- -5'
23346 3' -55.8 NC_005259.1 + 36237 0.66 0.78373
Target:  5'- uGGCC--AGCGCGaGCGccUGCGUCG-GCa -3'
miRNA:   3'- gCUGGgcUCGUGC-CGU--AUGCAGCaCG- -5'
23346 3' -55.8 NC_005259.1 + 2142 0.66 0.78373
Target:  5'- aGACCCGcacGGUGCuGGCcagcgGCGUCGaGCc -3'
miRNA:   3'- gCUGGGC---UCGUG-CCGua---UGCAGCaCG- -5'
23346 3' -55.8 NC_005259.1 + 53011 0.66 0.78373
Target:  5'- uCGA-CUGGGCGCuGCGgugGCGUCGagGCa -3'
miRNA:   3'- -GCUgGGCUCGUGcCGUa--UGCAGCa-CG- -5'
23346 3' -55.8 NC_005259.1 + 17053 0.66 0.774053
Target:  5'- gCGAcCCCGAG-GCGGUGcGCGcauUUGUGCg -3'
miRNA:   3'- -GCU-GGGCUCgUGCCGUaUGC---AGCACG- -5'
23346 3' -55.8 NC_005259.1 + 26353 0.66 0.764237
Target:  5'- uCGGgCCGAGCuGCGcGUAgAUGUCGgugGCg -3'
miRNA:   3'- -GCUgGGCUCG-UGC-CGUaUGCAGCa--CG- -5'
23346 3' -55.8 NC_005259.1 + 3322 0.66 0.764237
Target:  5'- uCGACgUGAGCGCcgGGCAgcucugCGUGCu -3'
miRNA:   3'- -GCUGgGCUCGUG--CCGUaugca-GCACG- -5'
23346 3' -55.8 NC_005259.1 + 29392 0.66 0.763248
Target:  5'- cCGACCUacaccgaGGGCcuCGGCGaGC-UCGUGCg -3'
miRNA:   3'- -GCUGGG-------CUCGu-GCCGUaUGcAGCACG- -5'
23346 3' -55.8 NC_005259.1 + 28409 0.66 0.758286
Target:  5'- -uGCCCGcGCGCaugggcauguaccucGGCAUACGUgucacgguagaCGUGCc -3'
miRNA:   3'- gcUGGGCuCGUG---------------CCGUAUGCA-----------GCACG- -5'
23346 3' -55.8 NC_005259.1 + 46592 0.66 0.754294
Target:  5'- -cGCCCGAG-GCGaGCAgcGCGUCGUugGCg -3'
miRNA:   3'- gcUGGGCUCgUGC-CGUa-UGCAGCA--CG- -5'
23346 3' -55.8 NC_005259.1 + 47695 0.66 0.754294
Target:  5'- -uGCCCGGuuggauGCGCGGCAgugccuUGUCG-GCg -3'
miRNA:   3'- gcUGGGCU------CGUGCCGUau----GCAGCaCG- -5'
23346 3' -55.8 NC_005259.1 + 50256 0.66 0.751288
Target:  5'- nGGCCaaCGGGCuACucgcugucgucgguGGCGggaACGUCGUGCa -3'
miRNA:   3'- gCUGG--GCUCG-UG--------------CCGUa--UGCAGCACG- -5'
23346 3' -55.8 NC_005259.1 + 37943 0.66 0.751288
Target:  5'- uCGACCacguagauaccguuCGGGCucuugguCGGCAgUGCGUCGUacuGCg -3'
miRNA:   3'- -GCUGG--------------GCUCGu------GCCGU-AUGCAGCA---CG- -5'
23346 3' -55.8 NC_005259.1 + 46684 0.67 0.744234
Target:  5'- uCGGCCUGAGCcgccGCcGCGUcccucgacGCG-CGUGCa -3'
miRNA:   3'- -GCUGGGCUCG----UGcCGUA--------UGCaGCACG- -5'
23346 3' -55.8 NC_005259.1 + 58353 0.67 0.744234
Target:  5'- uGGCCuCGGGCACGucGCAgaaGUCGUagaGCu -3'
miRNA:   3'- gCUGG-GCUCGUGC--CGUaugCAGCA---CG- -5'
23346 3' -55.8 NC_005259.1 + 38067 0.67 0.734067
Target:  5'- cCGACgagccgccaUCGAGCAUGGCccACGUCGa-- -3'
miRNA:   3'- -GCUG---------GGCUCGUGCCGuaUGCAGCacg -5'
23346 3' -55.8 NC_005259.1 + 55714 0.67 0.723805
Target:  5'- uGGCCgCGAGCACcucgcccuuguuGGCAagcUugGUgGUGUc -3'
miRNA:   3'- gCUGG-GCUCGUG------------CCGU---AugCAgCACG- -5'
23346 3' -55.8 NC_005259.1 + 57306 0.67 0.723805
Target:  5'- aCGACaUCGAGCAcCGGCGgu-GUCGgUGUg -3'
miRNA:   3'- -GCUG-GGCUCGU-GCCGUaugCAGC-ACG- -5'
23346 3' -55.8 NC_005259.1 + 49187 0.67 0.703032
Target:  5'- cCGAUCCGAaaggaccgGgGCGGUuucCGUUGUGCg -3'
miRNA:   3'- -GCUGGGCU--------CgUGCCGuauGCAGCACG- -5'
23346 3' -55.8 NC_005259.1 + 61248 0.67 0.703032
Target:  5'- uCGAUCuCGGGUGCGaGCAUGCGacCGUcGCu -3'
miRNA:   3'- -GCUGG-GCUCGUGC-CGUAUGCa-GCA-CG- -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.