miRNA display CGI


Results 1 - 20 of 25 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
7245 3' -53.9 NC_001900.1 + 37403 0.66 0.815635
Target:  5'- uCGcCGAUGUGGACGaccucgucgGGCUgGGUgucgCCg -3'
miRNA:   3'- -GCuGUUGCAUCUGCa--------CCGGgCCAa---GG- -5'
7245 3' -53.9 NC_001900.1 + 15436 0.66 0.811884
Target:  5'- aCGAgGGCGUGGAUGUcGCCgccgaucugcagaGGUUCUc -3'
miRNA:   3'- -GCUgUUGCAUCUGCAcCGGg------------CCAAGG- -5'
7245 3' -53.9 NC_001900.1 + 13285 0.66 0.786796
Target:  5'- uGACGACGUuguGACGUugugGGCCaaGGagCCu -3'
miRNA:   3'- gCUGUUGCAu--CUGCA----CCGGg-CCaaGG- -5'
7245 3' -53.9 NC_001900.1 + 24315 0.67 0.756507
Target:  5'- uGACGAUcUGGAuCGggacugaGGCCCaGUUCCa -3'
miRNA:   3'- gCUGUUGcAUCU-GCa------CCGGGcCAAGG- -5'
7245 3' -53.9 NC_001900.1 + 48332 0.67 0.755476
Target:  5'- gCGGCuGCgGUAGACGUuccagaccgcugcGGCCCGuGgcaugUCCc -3'
miRNA:   3'- -GCUGuUG-CAUCUGCA-------------CCGGGC-Ca----AGG- -5'
7245 3' -53.9 NC_001900.1 + 17191 0.67 0.74614
Target:  5'- cCGACGugGUGu-CGcagGGUCCGGggcUCCa -3'
miRNA:   3'- -GCUGUugCAUcuGCa--CCGGGCCa--AGG- -5'
7245 3' -53.9 NC_001900.1 + 20735 0.67 0.714392
Target:  5'- aCGGCAGCa-AGcUGUGGCUCGGcucaUUCCa -3'
miRNA:   3'- -GCUGUUGcaUCuGCACCGGGCC----AAGG- -5'
7245 3' -53.9 NC_001900.1 + 1252 0.67 0.714392
Target:  5'- gCGGCAGCGgagcuGGCGgcgGGUUCGGUggUUCg -3'
miRNA:   3'- -GCUGUUGCau---CUGCa--CCGGGCCA--AGG- -5'
7245 3' -53.9 NC_001900.1 + 8196 0.67 0.714392
Target:  5'- aGGCGuACGUcgaguggcaGGACGUGcaGUCCGGgaagUCCg -3'
miRNA:   3'- gCUGU-UGCA---------UCUGCAC--CGGGCCa---AGG- -5'
7245 3' -53.9 NC_001900.1 + 37356 0.67 0.71332
Target:  5'- cCGACGAacccuugguccacCG-AGACG-GGCUCGGguagUCCa -3'
miRNA:   3'- -GCUGUU-------------GCaUCUGCaCCGGGCCa---AGG- -5'
7245 3' -53.9 NC_001900.1 + 10981 0.68 0.703632
Target:  5'- aGACGuACGUccaGGACGUacugaaGGCguccUCGGUUCCg -3'
miRNA:   3'- gCUGU-UGCA---UCUGCA------CCG----GGCCAAGG- -5'
7245 3' -53.9 NC_001900.1 + 44678 0.68 0.692801
Target:  5'- gCGACAGCGUGGaACGcGGUCCccugcGGcagCCa -3'
miRNA:   3'- -GCUGUUGCAUC-UGCaCCGGG-----CCaa-GG- -5'
7245 3' -53.9 NC_001900.1 + 30974 0.68 0.692801
Target:  5'- uCGGCGcUGUAGAUGUccaGCCCGGUgguUUCg -3'
miRNA:   3'- -GCUGUuGCAUCUGCAc--CGGGCCA---AGG- -5'
7245 3' -53.9 NC_001900.1 + 41775 0.68 0.660001
Target:  5'- cCGGCGGCGaGGGCGaUGGCUgCGGUggCg -3'
miRNA:   3'- -GCUGUUGCaUCUGC-ACCGG-GCCAagG- -5'
7245 3' -53.9 NC_001900.1 + 11272 0.69 0.649002
Target:  5'- uCGACGugG-AGAacUGGCCCGGaaaggCCg -3'
miRNA:   3'- -GCUGUugCaUCUgcACCGGGCCaa---GG- -5'
7245 3' -53.9 NC_001900.1 + 43222 0.69 0.626967
Target:  5'- -cGCGAgGUGGAgguCGUGGUCCGGg-CCa -3'
miRNA:   3'- gcUGUUgCAUCU---GCACCGGGCCaaGG- -5'
7245 3' -53.9 NC_001900.1 + 47391 0.69 0.615951
Target:  5'- aGAcCGGCG-GGACGUGGCCCuug-CCg -3'
miRNA:   3'- gCU-GUUGCaUCUGCACCGGGccaaGG- -5'
7245 3' -53.9 NC_001900.1 + 4524 0.7 0.572121
Target:  5'- cCGAacuucgaGugGUGGACGUGGUCaGG-UCCg -3'
miRNA:   3'- -GCUg------UugCAUCUGCACCGGgCCaAGG- -5'
7245 3' -53.9 NC_001900.1 + 19888 0.7 0.539733
Target:  5'- uGugGGCGcGGAUGaacgGuGUCCGGUUCCg -3'
miRNA:   3'- gCugUUGCaUCUGCa---C-CGGGCCAAGG- -5'
7245 3' -53.9 NC_001900.1 + 45164 0.71 0.487271
Target:  5'- cCGACGAacucGAUGUcguaGGUCCGGUUCCa -3'
miRNA:   3'- -GCUGUUgcauCUGCA----CCGGGCCAAGG- -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.