miRNA display CGI


Results 1 - 20 of 46 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
29962 3' -56 NC_006273.1 + 1882 0.67 0.939868
Target:  5'- -gGCCGUGCgUCG-GCaCCugaaccagCGUCUGUg -3'
miRNA:   3'- agUGGCACG-AGCaCG-GGua------GCAGACG- -5'
29962 3' -56 NC_006273.1 + 20738 1.13 0.002844
Target:  5'- cUCACCGUGCUCGUGCCCAUCGUCUGCa -3'
miRNA:   3'- -AGUGGCACGAGCACGGGUAGCAGACG- -5'
29962 3' -56 NC_006273.1 + 21545 0.76 0.513006
Target:  5'- cCACCGUcgcuuucucaucucaGCcucgUCGUGCCCGUCGgCUGCc -3'
miRNA:   3'- aGUGGCA---------------CG----AGCACGGGUAGCaGACG- -5'
29962 3' -56 NC_006273.1 + 34103 0.67 0.94431
Target:  5'- cCGCCGUcgUCGcGCCCGUCG-CcGCa -3'
miRNA:   3'- aGUGGCAcgAGCaCGGGUAGCaGaCG- -5'
29962 3' -56 NC_006273.1 + 38325 0.69 0.876362
Target:  5'- gUCGCCGUGUcgUCGccGCCacCGUCGUCgccGCu -3'
miRNA:   3'- -AGUGGCACG--AGCa-CGG--GUAGCAGa--CG- -5'
29962 3' -56 NC_006273.1 + 39101 0.68 0.889869
Target:  5'- gUCAUgGUGCccuUCGUGCCgCA-CGcCUGCc -3'
miRNA:   3'- -AGUGgCACG---AGCACGG-GUaGCaGACG- -5'
29962 3' -56 NC_006273.1 + 39210 0.67 0.935204
Target:  5'- -gGCCGUccgaGCggcagcagCGUGCCCgcGUCGcgCUGCg -3'
miRNA:   3'- agUGGCA----CGa-------GCACGGG--UAGCa-GACG- -5'
29962 3' -56 NC_006273.1 + 40295 0.67 0.930317
Target:  5'- cCACCGUuuUCaUGCCCGUCGU--GCu -3'
miRNA:   3'- aGUGGCAcgAGcACGGGUAGCAgaCG- -5'
29962 3' -56 NC_006273.1 + 42717 0.67 0.935204
Target:  5'- gCGCCGUGUuggCGUGCCgGUCcagguuaagGUCgaGCg -3'
miRNA:   3'- aGUGGCACGa--GCACGGgUAG---------CAGa-CG- -5'
29962 3' -56 NC_006273.1 + 47682 0.72 0.72399
Target:  5'- aUCAUCGgcgugaUGCUCGUGCUgAUCGuggccauucUCUGCu -3'
miRNA:   3'- -AGUGGC------ACGAGCACGGgUAGC---------AGACG- -5'
29962 3' -56 NC_006273.1 + 48520 0.69 0.876362
Target:  5'- cCACCGUGCUCGUcGUCCccuccuuaaucaGUUGUUcaUGUa -3'
miRNA:   3'- aGUGGCACGAGCA-CGGG------------UAGCAG--ACG- -5'
29962 3' -56 NC_006273.1 + 65786 0.67 0.939868
Target:  5'- -uGCCGUcaaucagcGCUCGUGUCUgcGUCGcccCUGCg -3'
miRNA:   3'- agUGGCA--------CGAGCACGGG--UAGCa--GACG- -5'
29962 3' -56 NC_006273.1 + 68082 0.67 0.930317
Target:  5'- cCGCCGcUGUggccggaGUGCCCGUCG-CcGCa -3'
miRNA:   3'- aGUGGC-ACGag-----CACGGGUAGCaGaCG- -5'
29962 3' -56 NC_006273.1 + 70328 0.68 0.896306
Target:  5'- gCGCCGUGCgUC-UGCCCGUgagcacCG-CUGCc -3'
miRNA:   3'- aGUGGCACG-AGcACGGGUA------GCaGACG- -5'
29962 3' -56 NC_006273.1 + 91169 0.67 0.94431
Target:  5'- gUCGuCCGaGCcgcCGUGCCgGUCGUC-GCa -3'
miRNA:   3'- -AGU-GGCaCGa--GCACGGgUAGCAGaCG- -5'
29962 3' -56 NC_006273.1 + 96472 0.7 0.806103
Target:  5'- cCACCGUGUUCcugGUGCCgCGaCGUCacgGCa -3'
miRNA:   3'- aGUGGCACGAG---CACGG-GUaGCAGa--CG- -5'
29962 3' -56 NC_006273.1 + 115181 0.71 0.792212
Target:  5'- aUCACCaacguggaaggcgGCUCGcuggaaGCCgGUCGUCUGCg -3'
miRNA:   3'- -AGUGGca-----------CGAGCa-----CGGgUAGCAGACG- -5'
29962 3' -56 NC_006273.1 + 117421 0.68 0.914311
Target:  5'- -gGCCGUGCUCG-GCC--UCGcCUGg -3'
miRNA:   3'- agUGGCACGAGCaCGGguAGCaGACg -5'
29962 3' -56 NC_006273.1 + 118432 0.7 0.814594
Target:  5'- cCACUGUGCaCGUaGCCCGUCacgGUCgGCc -3'
miRNA:   3'- aGUGGCACGaGCA-CGGGUAG---CAGaCG- -5'
29962 3' -56 NC_006273.1 + 124005 0.68 0.902527
Target:  5'- cCGCUGUGCU--UGUCCAgcUCGUCcgGCg -3'
miRNA:   3'- aGUGGCACGAgcACGGGU--AGCAGa-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.