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
12961 3' -54.2 NC_003387.1 + 37245 1.11 0.000953
Target:  5'- aUUUCGACGAGCUGAACGUGUCGGCCCg -3'
miRNA:   3'- -AAAGCUGCUCGACUUGCACAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 41826 0.86 0.053332
Target:  5'- -aUCGACGAGCUGAGCauccugGUCGGCCa -3'
miRNA:   3'- aaAGCUGCUCGACUUGca----CAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 46780 0.82 0.104036
Target:  5'- gUUCGGCGAGCUGAucgagaAgGUGUucgaCGGCCCg -3'
miRNA:   3'- aAAGCUGCUCGACU------UgCACA----GCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 28455 0.81 0.119954
Target:  5'- -aUCGACGAGCUG-GCGg--CGGCCCc -3'
miRNA:   3'- aaAGCUGCUCGACuUGCacaGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 5747 0.79 0.146063
Target:  5'- ---gGACGAGCUGAACGccUCGGCCg -3'
miRNA:   3'- aaagCUGCUCGACUUGCacAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 14573 0.79 0.160535
Target:  5'- -cUCGACGAGCcgggGAAcuugaggucgauaacCGUGUCGGUCCa -3'
miRNA:   3'- aaAGCUGCUCGa---CUU---------------GCACAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 18990 0.78 0.192357
Target:  5'- -aUCGACGAGCUGGcgGCGUG--GGCCUc -3'
miRNA:   3'- aaAGCUGCUCGACU--UGCACagCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 23910 0.77 0.214234
Target:  5'- --cCGAgGGGCUGAACGUcGUCGagcuGCCCg -3'
miRNA:   3'- aaaGCUgCUCGACUUGCA-CAGC----CGGG- -5'
12961 3' -54.2 NC_003387.1 + 4188 0.76 0.238213
Target:  5'- -cUCGGCGcgguGCUucGGccaccGCGUGUCGGCCCa -3'
miRNA:   3'- aaAGCUGCu---CGA--CU-----UGCACAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 48259 0.76 0.244549
Target:  5'- --gCGGCGGGCUcGGCG-GUCGGCUCg -3'
miRNA:   3'- aaaGCUGCUCGAcUUGCaCAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 43919 0.75 0.271297
Target:  5'- gUUCGggcGCGAGCUGAGCGggaaucagGUC-GCCCg -3'
miRNA:   3'- aAAGC---UGCUCGACUUGCa-------CAGcCGGG- -5'
12961 3' -54.2 NC_003387.1 + 48156 0.74 0.307976
Target:  5'- -cUCGGCGAGC--AGCuUGUCGGCCUu -3'
miRNA:   3'- aaAGCUGCUCGacUUGcACAGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 8057 0.74 0.335014
Target:  5'- -cUCGACGAGCUGGcggcccGCGcuaacccgcugccgGUCGGCgCCa -3'
miRNA:   3'- aaAGCUGCUCGACU------UGCa-------------CAGCCG-GG- -5'
12961 3' -54.2 NC_003387.1 + 18385 0.73 0.348325
Target:  5'- -gUCGACGucgaucGGCUGcGACGgGUCGGCCg -3'
miRNA:   3'- aaAGCUGC------UCGAC-UUGCaCAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 10030 0.73 0.362877
Target:  5'- --aCGACGAGCcGAagcgcgccgagggcGCgGUGUCGGCCg -3'
miRNA:   3'- aaaGCUGCUCGaCU--------------UG-CACAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 17624 0.72 0.392307
Target:  5'- -cUCGACGAGCcgGAauGCGUGcCaGGCCa -3'
miRNA:   3'- aaAGCUGCUCGa-CU--UGCACaG-CCGGg -5'
12961 3' -54.2 NC_003387.1 + 34147 0.72 0.401527
Target:  5'- -cUCGACGAGCaccaGGGCGUcgcccUCGGCCUu -3'
miRNA:   3'- aaAGCUGCUCGa---CUUGCAc----AGCCGGG- -5'
12961 3' -54.2 NC_003387.1 + 2917 0.72 0.41942
Target:  5'- cUUCGACcGGCUGAuCGUGucgcgguUCGGCgCCa -3'
miRNA:   3'- aAAGCUGcUCGACUuGCAC-------AGCCG-GG- -5'
12961 3' -54.2 NC_003387.1 + 27447 0.72 0.420375
Target:  5'- -aUCGACGGGUcGAGCGcacgcgcgacGUCGGCCg -3'
miRNA:   3'- aaAGCUGCUCGaCUUGCa---------CAGCCGGg -5'
12961 3' -54.2 NC_003387.1 + 50837 0.71 0.438766
Target:  5'- aUUCagcGCGGGCUGAucgccaugcgucaACGUGUCGGCg- -3'
miRNA:   3'- aAAGc--UGCUCGACU-------------UGCACAGCCGgg -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.