miRNA display CGI


Results 1 - 20 of 22 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
31719 3' -58.4 NC_006938.1 + 43267 0.66 0.647826
Target:  5'- aCGUCCggaguGCCGUCcCGAUCCGGcGUCUc- -3'
miRNA:   3'- -GCAGG-----CGGCGGcGCUAGGUC-UAGAcc -5'
31719 3' -58.4 NC_006938.1 + 19738 0.66 0.637307
Target:  5'- --aCCGCUGCCcgacGCGGUgCGGAaggcgCUGGa -3'
miRNA:   3'- gcaGGCGGCGG----CGCUAgGUCUa----GACC- -5'
31719 3' -58.4 NC_006938.1 + 31848 0.66 0.637307
Target:  5'- -uUCCGUCG-CGCGGUCgAGGgugucCUGGa -3'
miRNA:   3'- gcAGGCGGCgGCGCUAGgUCUa----GACC- -5'
31719 3' -58.4 NC_006938.1 + 53532 0.66 0.626783
Target:  5'- uGUCCGCCGUCaGCGAgaucgUCCcugugGGAgcgaUGGa -3'
miRNA:   3'- gCAGGCGGCGG-CGCU-----AGG-----UCUag--ACC- -5'
31719 3' -58.4 NC_006938.1 + 17318 0.66 0.626783
Target:  5'- -cUCCGCCGUgGCcugcuugaGGUCCAGAg--GGa -3'
miRNA:   3'- gcAGGCGGCGgCG--------CUAGGUCUagaCC- -5'
31719 3' -58.4 NC_006938.1 + 32713 0.66 0.605757
Target:  5'- cCGaUCCGCaagcagcucUGCCGCGuggCCAucaagggcacGAUCUGGg -3'
miRNA:   3'- -GC-AGGCG---------GCGGCGCua-GGU----------CUAGACC- -5'
31719 3' -58.4 NC_006938.1 + 40642 0.66 0.605757
Target:  5'- uCGUCCGCauCCGCuGGUCCAGcagugccUCUGu -3'
miRNA:   3'- -GCAGGCGgcGGCG-CUAGGUCu------AGACc -5'
31719 3' -58.4 NC_006938.1 + 7287 0.67 0.564015
Target:  5'- cCGUCCGCaCGaaGCucUCCGGAUCg-- -3'
miRNA:   3'- -GCAGGCG-GCggCGcuAGGUCUAGacc -5'
31719 3' -58.4 NC_006938.1 + 20679 0.67 0.553687
Target:  5'- gCG-CCGCCGCCGUGGUgagaaCCAGGgacaGGc -3'
miRNA:   3'- -GCaGGCGGCGGCGCUA-----GGUCUaga-CC- -5'
31719 3' -58.4 NC_006938.1 + 45064 0.67 0.543417
Target:  5'- uCGUCCgGCCGguagaUGCGccgCCAGAUCgGGg -3'
miRNA:   3'- -GCAGG-CGGCg----GCGCua-GGUCUAGaCC- -5'
31719 3' -58.4 NC_006938.1 + 60922 0.67 0.532192
Target:  5'- --cUCGUCGCCGUggaggccgcacucGAUCCcgaGGAUCUGGu -3'
miRNA:   3'- gcaGGCGGCGGCG-------------CUAGG---UCUAGACC- -5'
31719 3' -58.4 NC_006938.1 + 17645 0.68 0.523071
Target:  5'- -cUCCGCCGCCGaGGcUCC-GAUCaGGa -3'
miRNA:   3'- gcAGGCGGCGGCgCU-AGGuCUAGaCC- -5'
31719 3' -58.4 NC_006938.1 + 30807 0.68 0.513008
Target:  5'- cCGUCCGCCuCCuGCGucUCCAGcuccucCUGGa -3'
miRNA:   3'- -GCAGGCGGcGG-CGCu-AGGUCua----GACC- -5'
31719 3' -58.4 NC_006938.1 + 33721 0.69 0.447892
Target:  5'- aGUCUcuccuuuggcaccugGCCGUgcagacaCGCGAUCCuguGGAUCUGGu -3'
miRNA:   3'- gCAGG---------------CGGCG-------GCGCUAGG---UCUAGACC- -5'
31719 3' -58.4 NC_006938.1 + 23134 0.7 0.399771
Target:  5'- aGUCCGgCGCgGCG-UCgGuGAUCUGGc -3'
miRNA:   3'- gCAGGCgGCGgCGCuAGgU-CUAGACC- -5'
31719 3' -58.4 NC_006938.1 + 60039 0.7 0.399771
Target:  5'- cCGgCCuuGCCGCCGUGGUaCCAGGccgcgucgaUCUGGu -3'
miRNA:   3'- -GCaGG--CGGCGGCGCUA-GGUCU---------AGACC- -5'
31719 3' -58.4 NC_006938.1 + 56094 0.7 0.382489
Target:  5'- uCGUgCGUCGCCGCGccuAUCUGGAcUCUGa -3'
miRNA:   3'- -GCAgGCGGCGGCGC---UAGGUCU-AGACc -5'
31719 3' -58.4 NC_006938.1 + 42350 0.7 0.374037
Target:  5'- aGUCCGCCGCCaCGAUgUCAGccUUGGu -3'
miRNA:   3'- gCAGGCGGCGGcGCUA-GGUCuaGACC- -5'
31719 3' -58.4 NC_006938.1 + 51554 0.7 0.374037
Target:  5'- --aCCGCCGCCaucgagggcGCGGUCCGGGUUg-- -3'
miRNA:   3'- gcaGGCGGCGG---------CGCUAGGUCUAGacc -5'
31719 3' -58.4 NC_006938.1 + 17201 0.7 0.374037
Target:  5'- --aCCGCCGuCCGCGuaGUCC--GUCUGGa -3'
miRNA:   3'- gcaGGCGGC-GGCGC--UAGGucUAGACC- -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.