miRNA display CGI


Results 1 - 20 of 66 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
26466 3' -60.7 NC_005357.1 + 165 0.67 0.316021
Target:  5'- uGCCCaagcuGCCGCGcGCAGaaUGCCgGCGu -3'
miRNA:   3'- gCGGG-----UGGUGCuCGUCaaGCGGgCGC- -5'
26466 3' -60.7 NC_005357.1 + 402 0.67 0.308484
Target:  5'- gCGCCCACCagcagcACG-GCGGUgaUCGUCgGCc -3'
miRNA:   3'- -GCGGGUGG------UGCuCGUCA--AGCGGgCGc -5'
26466 3' -60.7 NC_005357.1 + 2211 0.66 0.390023
Target:  5'- aCGCCCucgucggguagcACCACGcgcAGCAGgcggCGCguggCCGCGc -3'
miRNA:   3'- -GCGGG------------UGGUGC---UCGUCaa--GCG----GGCGC- -5'
26466 3' -60.7 NC_005357.1 + 2367 0.73 0.130966
Target:  5'- uCGgCCugCACGuGGCAGa-CGCCCGCGu -3'
miRNA:   3'- -GCgGGugGUGC-UCGUCaaGCGGGCGC- -5'
26466 3' -60.7 NC_005357.1 + 3224 0.66 0.372631
Target:  5'- uGCCCGCCACGAuGaauaaUUCGaCCUGCc -3'
miRNA:   3'- gCGGGUGGUGCU-Cguc--AAGC-GGGCGc -5'
26466 3' -60.7 NC_005357.1 + 4042 0.66 0.381261
Target:  5'- cCGgCCGCgGCGAGCGGcagGCCaGCGg -3'
miRNA:   3'- -GCgGGUGgUGCUCGUCaagCGGgCGC- -5'
26466 3' -60.7 NC_005357.1 + 4898 0.67 0.331509
Target:  5'- gGCCUcguuuucgGCCACGguggaaacgucGGCAGcgaUGCCCGCGa -3'
miRNA:   3'- gCGGG--------UGGUGC-----------UCGUCaa-GCGGGCGC- -5'
26466 3' -60.7 NC_005357.1 + 5535 0.67 0.331509
Target:  5'- cCGCCCAgguuCCGCc--CAGgUCGCCCGCc -3'
miRNA:   3'- -GCGGGU----GGUGcucGUCaAGCGGGCGc -5'
26466 3' -60.7 NC_005357.1 + 5603 0.7 0.206186
Target:  5'- gGCCCACUcgGCGGGguGcguUUCGCgCGUGg -3'
miRNA:   3'- gCGGGUGG--UGCUCguC---AAGCGgGCGC- -5'
26466 3' -60.7 NC_005357.1 + 6740 0.67 0.323696
Target:  5'- gGgCCGCCGCGcucaauAGCggaaaggucuuuAGUUUGCCCGCc -3'
miRNA:   3'- gCgGGUGGUGC------UCG------------UCAAGCGGGCGc -5'
26466 3' -60.7 NC_005357.1 + 6991 0.67 0.33946
Target:  5'- gGCUuucaCACgCGCGAGCGGgUCGgCUCGCGu -3'
miRNA:   3'- gCGG----GUG-GUGCUCGUCaAGC-GGGCGC- -5'
26466 3' -60.7 NC_005357.1 + 8400 0.77 0.068891
Target:  5'- cCGCCCACgugucgggcaGCGAGCAGUUCGCgggggcgUCGCGg -3'
miRNA:   3'- -GCGGGUGg---------UGCUCGUCAAGCG-------GGCGC- -5'
26466 3' -60.7 NC_005357.1 + 9723 0.67 0.308484
Target:  5'- aCGCCUcgaaGCCGCGGGCGaacUGCUCGUGg -3'
miRNA:   3'- -GCGGG----UGGUGCUCGUcaaGCGGGCGC- -5'
26466 3' -60.7 NC_005357.1 + 10924 0.68 0.279022
Target:  5'- uGCCCGCCGguuugcagggccuCGGGCAGUU-GCgCgGCGa -3'
miRNA:   3'- gCGGGUGGU-------------GCUCGUCAAgCG-GgCGC- -5'
26466 3' -60.7 NC_005357.1 + 11125 0.67 0.308484
Target:  5'- gGUUCAaacgUGCGAGCAGUUCGgCCUGCu -3'
miRNA:   3'- gCGGGUg---GUGCUCGUCAAGC-GGGCGc -5'
26466 3' -60.7 NC_005357.1 + 11241 0.68 0.301086
Target:  5'- aCGCCCACUAgCGuGGCgaugagGGUUUGCgCUGCGg -3'
miRNA:   3'- -GCGGGUGGU-GC-UCG------UCAAGCG-GGCGC- -5'
26466 3' -60.7 NC_005357.1 + 11491 0.67 0.347549
Target:  5'- uCGCCugcgaCACCGCaaaGGGCAG--CGCCUGCGc -3'
miRNA:   3'- -GCGG-----GUGGUG---CUCGUCaaGCGGGCGC- -5'
26466 3' -60.7 NC_005357.1 + 11601 0.66 0.390023
Target:  5'- gGCUgGCCGcCGGGCAGcagUGCCaGCGg -3'
miRNA:   3'- gCGGgUGGU-GCUCGUCaa-GCGGgCGC- -5'
26466 3' -60.7 NC_005357.1 + 12667 0.71 0.190623
Target:  5'- uCGCCCAUCAUGcGCAGgcgcgugUCgagGCCCGCc -3'
miRNA:   3'- -GCGGGUGGUGCuCGUCa------AG---CGGGCGc -5'
26466 3' -60.7 NC_005357.1 + 13495 0.71 0.192637
Target:  5'- uGCCgACCGCGccuuugggcgagguaAGCGGUUugcCGUCCGCGc -3'
miRNA:   3'- gCGGgUGGUGC---------------UCGUCAA---GCGGGCGC- -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.