miRNA display CGI


Results 1 - 20 of 76 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
28114 3' -53.2 NC_005887.1 + 39040 0.66 0.768427
Target:  5'- uGCGGAgUCAgcgaaCGACAUggcGUCGUUCGUAUc -3'
miRNA:   3'- -CGUCU-AGUg----GCUGUA---CAGCGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 16452 0.66 0.768427
Target:  5'- cGCGuGcgCGCgGGCAUG-CGCUcgacCGCGCg -3'
miRNA:   3'- -CGU-CuaGUGgCUGUACaGCGA----GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 4477 0.66 0.768427
Target:  5'- uGCAgGAUCGCCG-CGccuUCGCcggCGCGCa -3'
miRNA:   3'- -CGU-CUAGUGGCuGUac-AGCGa--GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 16084 0.66 0.768427
Target:  5'- uGCGGcucccgauacGUCACCGGCucgcggcggGUCuGCgcgCGCACg -3'
miRNA:   3'- -CGUC----------UAGUGGCUGua-------CAG-CGa--GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 12324 0.66 0.768427
Target:  5'- uGCAGcUCAgCGaacuGCGUacGUCGCUCGC-Cg -3'
miRNA:   3'- -CGUCuAGUgGC----UGUA--CAGCGAGCGuG- -5'
28114 3' -53.2 NC_005887.1 + 19730 0.66 0.767377
Target:  5'- cGCGGAUCuggugcauuggcgGCaCGACGcUGUCGCUC-UACc -3'
miRNA:   3'- -CGUCUAG-------------UG-GCUGU-ACAGCGAGcGUG- -5'
28114 3' -53.2 NC_005887.1 + 13002 0.66 0.757868
Target:  5'- cGCGGcuugCugCGGCAgGgacgCGCUCGCGa -3'
miRNA:   3'- -CGUCua--GugGCUGUaCa---GCGAGCGUg -5'
28114 3' -53.2 NC_005887.1 + 3990 0.66 0.757868
Target:  5'- cGCGGAuguuggUCuuCGcCAUGUCGUUCGC-Ca -3'
miRNA:   3'- -CGUCU------AGugGCuGUACAGCGAGCGuG- -5'
28114 3' -53.2 NC_005887.1 + 8494 0.66 0.757868
Target:  5'- cGCGGAUCGCuCGGCGauagccugGUCGUgcucggcccaCGCGCc -3'
miRNA:   3'- -CGUCUAGUG-GCUGUa-------CAGCGa---------GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 22609 0.66 0.757868
Target:  5'- uGUGGAUCGCUGcGCGcGUCGCcuacUgGCACa -3'
miRNA:   3'- -CGUCUAGUGGC-UGUaCAGCG----AgCGUG- -5'
28114 3' -53.2 NC_005887.1 + 40851 0.66 0.747172
Target:  5'- uCGGAUcCACCGGCGaaGcCGC-CGCGCg -3'
miRNA:   3'- cGUCUA-GUGGCUGUa-CaGCGaGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 17169 0.66 0.747172
Target:  5'- aGCGGAUUcCCGGCGUcGUCGagguaUUGCGa -3'
miRNA:   3'- -CGUCUAGuGGCUGUA-CAGCg----AGCGUg -5'
28114 3' -53.2 NC_005887.1 + 30208 0.66 0.747172
Target:  5'- gGCAucggCGCCGACuUGUacaaGCUUGCAUa -3'
miRNA:   3'- -CGUcua-GUGGCUGuACAg---CGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 20887 0.66 0.736351
Target:  5'- aUAGuggCGCCGGCGUGUCGaaaaUCGUu- -3'
miRNA:   3'- cGUCua-GUGGCUGUACAGCg---AGCGug -5'
28114 3' -53.2 NC_005887.1 + 4252 0.66 0.736351
Target:  5'- aGCAcuucGGUCGCgGuCAUGUCGC-CGCu- -3'
miRNA:   3'- -CGU----CUAGUGgCuGUACAGCGaGCGug -5'
28114 3' -53.2 NC_005887.1 + 18640 0.66 0.736351
Target:  5'- -uGGAaCGCCGcgacgaGCAUGUCGCcCGCGa -3'
miRNA:   3'- cgUCUaGUGGC------UGUACAGCGaGCGUg -5'
28114 3' -53.2 NC_005887.1 + 26910 0.66 0.736351
Target:  5'- gGCAacGGcUACCGGCAgacgcgccCGCUCGCGCa -3'
miRNA:   3'- -CGU--CUaGUGGCUGUaca-----GCGAGCGUG- -5'
28114 3' -53.2 NC_005887.1 + 10007 0.66 0.734173
Target:  5'- -aAGAUCGCCGACcacaucacgCGCggcCGCGCu -3'
miRNA:   3'- cgUCUAGUGGCUGuaca-----GCGa--GCGUG- -5'
28114 3' -53.2 NC_005887.1 + 5212 0.66 0.725418
Target:  5'- aGCGGcgCGCCGAC--GUCGggCaGCGCg -3'
miRNA:   3'- -CGUCuaGUGGCUGuaCAGCgaG-CGUG- -5'
28114 3' -53.2 NC_005887.1 + 6277 0.67 0.714386
Target:  5'- aCAGGcCACCG-CAcGUCGgUUCGCACc -3'
miRNA:   3'- cGUCUaGUGGCuGUaCAGC-GAGCGUG- -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.