miRNA display CGI


Results 1 - 20 of 20 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
2329 3' -56.8 NC_001416.1 + 11161 0.66 0.583674
Target:  5'- cCGCCuuaacCAGUGCGCUGAGugacucgcugGUCUGGUu -3'
miRNA:   3'- aGCGGuc---GUCGCGUGACUC----------UAGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 5603 0.66 0.583674
Target:  5'- cUGCCAGCAcGCGUGCUGuucuucgcGUCCgugAGCc -3'
miRNA:   3'- aGCGGUCGU-CGCGUGACuc------UAGG---UCG- -5'
2329 3' -56.8 NC_001416.1 + 20195 0.66 0.566118
Target:  5'- gCGCCGGaGGaCGCuucCUGAGcugacgaugcagccuGUCCGGCg -3'
miRNA:   3'- aGCGGUCgUC-GCGu--GACUC---------------UAGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 17339 0.66 0.561749
Target:  5'- cCGCCAGCGGUGCAgcacCUGA---CC-GCa -3'
miRNA:   3'- aGCGGUCGUCGCGU----GACUcuaGGuCG- -5'
2329 3' -56.8 NC_001416.1 + 40242 0.66 0.550869
Target:  5'- uUCGCCAGagccuGUGCACgauuuaGAGGUCUAccGCc -3'
miRNA:   3'- -AGCGGUCgu---CGCGUGa-----CUCUAGGU--CG- -5'
2329 3' -56.8 NC_001416.1 + 40056 0.66 0.550869
Target:  5'- -aGCCAGUAGUGCGCguuUGAuuUCCAc- -3'
miRNA:   3'- agCGGUCGUCGCGUG---ACUcuAGGUcg -5'
2329 3' -56.8 NC_001416.1 + 3419 0.66 0.540054
Target:  5'- aUGaCAGCGGUgcgGCGCUGGGAUauuacgUCAGCg -3'
miRNA:   3'- aGCgGUCGUCG---CGUGACUCUA------GGUCG- -5'
2329 3' -56.8 NC_001416.1 + 21378 0.68 0.446743
Target:  5'- cCGCCAGCGGuCGUGCUGuauuGUCuCAGg -3'
miRNA:   3'- aGCGGUCGUC-GCGUGACuc--UAG-GUCg -5'
2329 3' -56.8 NC_001416.1 + 13812 0.68 0.427226
Target:  5'- -aGCC-GCuGGCGCAUUGAGcaGUgCAGCg -3'
miRNA:   3'- agCGGuCG-UCGCGUGACUC--UAgGUCG- -5'
2329 3' -56.8 NC_001416.1 + 12082 0.69 0.417658
Target:  5'- gUCGCCAGCuGUcuGCACagGAGAaaUCCcugcuGGCg -3'
miRNA:   3'- -AGCGGUCGuCG--CGUGa-CUCU--AGG-----UCG- -5'
2329 3' -56.8 NC_001416.1 + 3785 0.69 0.380732
Target:  5'- aCGCC-GCAGCGCc----GGUCCGGCu -3'
miRNA:   3'- aGCGGuCGUCGCGugacuCUAGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 20147 0.69 0.371847
Target:  5'- gUGCUGGCGGCGCguGCUGAG--UCAGUu -3'
miRNA:   3'- aGCGGUCGUCGCG--UGACUCuaGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 6697 0.7 0.36051
Target:  5'- aCGCCAGCGGUGUGgUGAauaucaucguguucGAUCCgaaaGGCu -3'
miRNA:   3'- aGCGGUCGUCGCGUgACU--------------CUAGG----UCG- -5'
2329 3' -56.8 NC_001416.1 + 16572 0.7 0.32958
Target:  5'- aUCGCCAGCAGaaauCGCUGAGcacAUCCcacGCc -3'
miRNA:   3'- -AGCGGUCGUCgc--GUGACUC---UAGGu--CG- -5'
2329 3' -56.8 NC_001416.1 + 12015 0.71 0.316824
Target:  5'- -aGCCAGCAGCGCcgggauuuguggaagGCgGAGAgUCAGUu -3'
miRNA:   3'- agCGGUCGUCGCG---------------UGaCUCUaGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 5725 0.72 0.269546
Target:  5'- -aGCCAGCGGUGCcggugcccccuGCaucaGAcGAUCCAGCg -3'
miRNA:   3'- agCGGUCGUCGCG-----------UGa---CU-CUAGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 10410 0.73 0.224525
Target:  5'- uUCGUCAGCcucGCGCcgguucagcagACUGAaAUCCAGCg -3'
miRNA:   3'- -AGCGGUCGu--CGCG-----------UGACUcUAGGUCG- -5'
2329 3' -56.8 NC_001416.1 + 9764 0.73 0.224525
Target:  5'- -aGCCcuGCAGCGCAUUGAGcAUCUcGCc -3'
miRNA:   3'- agCGGu-CGUCGCGUGACUC-UAGGuCG- -5'
2329 3' -56.8 NC_001416.1 + 9288 0.75 0.17618
Target:  5'- aCGCCAGCAGCGCcuGCUGccccugcucuccGGGcauccacgCCAGCg -3'
miRNA:   3'- aGCGGUCGUCGCG--UGAC------------UCUa-------GGUCG- -5'
2329 3' -56.8 NC_001416.1 + 2599 0.99 0.002918
Target:  5'- cUCG-CAGCAGCGCACUGAGAUCCAGCu -3'
miRNA:   3'- -AGCgGUCGUCGCGUGACUCUAGGUCG- -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.