miRNA display CGI


Results 1 - 20 of 32 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
23199 3' -53.2 NC_005259.1 + 55241 0.66 0.913197
Target:  5'- uGCCca-CGACCUaUGUCGGGG---UCCa -3'
miRNA:   3'- -CGGccaGCUGGA-GCAGCCCUuaaAGG- -5'
23199 3' -53.2 NC_005259.1 + 26281 0.66 0.913197
Target:  5'- cGCCGGUgcCGcCCUCGacggguaCGGGGAUcgacCCa -3'
miRNA:   3'- -CGGCCA--GCuGGAGCa------GCCCUUAaa--GG- -5'
23199 3' -53.2 NC_005259.1 + 13698 0.66 0.909426
Target:  5'- gGCCGGUCGACCcCGccucgacaccgacaaUCGaGGug---CCg -3'
miRNA:   3'- -CGGCCAGCUGGaGC---------------AGC-CCuuaaaGG- -5'
23199 3' -53.2 NC_005259.1 + 56154 0.66 0.890599
Target:  5'- uCCGGUCGAgcacguCCUCGUUGGccacggugCCg -3'
miRNA:   3'- cGGCCAGCU------GGAGCAGCCcuuaaa--GG- -5'
23199 3' -53.2 NC_005259.1 + 30803 0.66 0.886305
Target:  5'- cGCCGGaacACCUgaGUCGGGuag-UCCg -3'
miRNA:   3'- -CGGCCagcUGGAg-CAGCCCuuaaAGG- -5'
23199 3' -53.2 NC_005259.1 + 18706 0.67 0.871354
Target:  5'- cGgCGGUCuGACCUCGaucaUCGGGccgc-CCg -3'
miRNA:   3'- -CgGCCAG-CUGGAGC----AGCCCuuaaaGG- -5'
23199 3' -53.2 NC_005259.1 + 22531 0.67 0.868248
Target:  5'- cGCCGGUgauuuccagcagucCGACCUCGcCGaggucauGGAAg--CCg -3'
miRNA:   3'- -CGGCCA--------------GCUGGAGCaGC-------CCUUaaaGG- -5'
23199 3' -53.2 NC_005259.1 + 43184 0.67 0.847166
Target:  5'- aGUCGGUacCGACCUCGgCGGcGAug-UCg -3'
miRNA:   3'- -CGGCCA--GCUGGAGCaGCC-CUuaaAGg -5'
23199 3' -53.2 NC_005259.1 + 9556 0.67 0.847166
Target:  5'- cCCGGccUCGACCgCGUCGGcGAGgugCUc -3'
miRNA:   3'- cGGCC--AGCUGGaGCAGCC-CUUaaaGG- -5'
23199 3' -53.2 NC_005259.1 + 283 0.67 0.84379
Target:  5'- cGCCGccuacgCGGCCUCGcgcugaucucgacCGGGggUgcgUCCg -3'
miRNA:   3'- -CGGCca----GCUGGAGCa------------GCCCuuAa--AGG- -5'
23199 3' -53.2 NC_005259.1 + 22387 0.68 0.838662
Target:  5'- cCCGGUCGGCCUCGgcgacgugaUCGaGAAagUCg -3'
miRNA:   3'- cGGCCAGCUGGAGC---------AGCcCUUaaAGg -5'
23199 3' -53.2 NC_005259.1 + 41644 0.68 0.838662
Target:  5'- uGCCGGUCugcgGGCgCUCGgugagCGGGA---UCUg -3'
miRNA:   3'- -CGGCCAG----CUG-GAGCa----GCCCUuaaAGG- -5'
23199 3' -53.2 NC_005259.1 + 8358 0.68 0.829951
Target:  5'- uGCCGGUaucgcucggcggCGGCCUCGgcaUCGGcGAGag-CCu -3'
miRNA:   3'- -CGGCCA------------GCUGGAGC---AGCC-CUUaaaGG- -5'
23199 3' -53.2 NC_005259.1 + 67430 0.68 0.81194
Target:  5'- uGCCGGgcucacgcUUGAgCgCGUCGGGGAUgcCCu -3'
miRNA:   3'- -CGGCC--------AGCUgGaGCAGCCCUUAaaGG- -5'
23199 3' -53.2 NC_005259.1 + 41315 0.68 0.793208
Target:  5'- cGCgaGGUCGACCUCGaaaaGGGcggugCCg -3'
miRNA:   3'- -CGg-CCAGCUGGAGCag--CCCuuaaaGG- -5'
23199 3' -53.2 NC_005259.1 + 63869 0.69 0.783596
Target:  5'- gGCCGGcUGGCCUUGcgUGGGcGUggaUUCCa -3'
miRNA:   3'- -CGGCCaGCUGGAGCa-GCCCuUA---AAGG- -5'
23199 3' -53.2 NC_005259.1 + 41267 0.69 0.773834
Target:  5'- cCCGGUCGAgcacCCUCGUCGGcgcacUCa -3'
miRNA:   3'- cGGCCAGCU----GGAGCAGCCcuuaaAGg -5'
23199 3' -53.2 NC_005259.1 + 64215 0.69 0.773834
Target:  5'- cGCCGGUCGGCagccCGguaUCGGGGucgauagCCg -3'
miRNA:   3'- -CGGCCAGCUGga--GC---AGCCCUuaaa---GG- -5'
23199 3' -53.2 NC_005259.1 + 60282 0.69 0.763931
Target:  5'- uGCCGGgCGGCCaUCGUCGucGGUgcggCCa -3'
miRNA:   3'- -CGGCCaGCUGG-AGCAGCccUUAaa--GG- -5'
23199 3' -53.2 NC_005259.1 + 58788 0.69 0.763931
Target:  5'- cGCCGGUCGaggcggugauuGCCUCGgCGGGcucgcgCUg -3'
miRNA:   3'- -CGGCCAGC-----------UGGAGCaGCCCuuaaa-GG- -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.