miRNA display CGI


Results 1 - 20 of 67 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
8094 3' -56.4 NC_001978.2 + 1007 0.67 0.584117
Target:  5'- gCGCGAcgaagccgcCGGAGUCGACaaGCCGGuugagggccuUCGGg -3'
miRNA:   3'- -GCGCUu--------GCCUCAGCUG--CGGCUu---------GGCC- -5'
8094 3' -56.4 NC_001978.2 + 1105 0.66 0.627437
Target:  5'- aCGCGGACGuAGugaaggccguUCGucuUGCCGAaguACCGGg -3'
miRNA:   3'- -GCGCUUGCcUC----------AGCu--GCGGCU---UGGCC- -5'
8094 3' -56.4 NC_001978.2 + 3071 0.68 0.510081
Target:  5'- gCGCGucauGCGGAGUgacCGucuCGCCGGaaGCCGc -3'
miRNA:   3'- -GCGCu---UGCCUCA---GCu--GCGGCU--UGGCc -5'
8094 3' -56.4 NC_001978.2 + 3120 0.66 0.616578
Target:  5'- uCGCGuaaGGAGauagUGACGCCGGAauGGc -3'
miRNA:   3'- -GCGCuugCCUCa---GCUGCGGCUUggCC- -5'
8094 3' -56.4 NC_001978.2 + 3695 0.7 0.412031
Target:  5'- aCGCGGugcGCGuuGUCGACGCCGGAguuagCGGc -3'
miRNA:   3'- -GCGCU---UGCcuCAGCUGCGGCUUg----GCC- -5'
8094 3' -56.4 NC_001978.2 + 4103 0.72 0.318725
Target:  5'- -cUGGGCGaAGUCGGCGaaGAGCCGGa -3'
miRNA:   3'- gcGCUUGCcUCAGCUGCggCUUGGCC- -5'
8094 3' -56.4 NC_001978.2 + 4494 0.66 0.649157
Target:  5'- aGgGAACGcGuGUCGugGuuGAACgUGGc -3'
miRNA:   3'- gCgCUUGC-CuCAGCugCggCUUG-GCC- -5'
8094 3' -56.4 NC_001978.2 + 5497 0.66 0.627437
Target:  5'- cCGCccaugGAACGcuGAGUCGugGCCGggUagcucucaGGa -3'
miRNA:   3'- -GCG-----CUUGC--CUCAGCugCGGCuuGg-------CC- -5'
8094 3' -56.4 NC_001978.2 + 5615 0.68 0.510081
Target:  5'- gGCGAcccAUGGcGUcacCGAUgGCCGGACCGGc -3'
miRNA:   3'- gCGCU---UGCCuCA---GCUG-CGGCUUGGCC- -5'
8094 3' -56.4 NC_001978.2 + 5999 0.67 0.605733
Target:  5'- gCGCGccGACGGucuucuuGUCGACGCCcgGGGCgCGa -3'
miRNA:   3'- -GCGC--UUGCCu------CAGCUGCGG--CUUG-GCc -5'
8094 3' -56.4 NC_001978.2 + 7174 0.75 0.201928
Target:  5'- gGCGAACuuGAGauugacguacUCGACGCCGgAGCCGGu -3'
miRNA:   3'- gCGCUUGc-CUC----------AGCUGCGGC-UUGGCC- -5'
8094 3' -56.4 NC_001978.2 + 7976 0.66 0.638299
Target:  5'- aCGUGAgcuugauuGCGGGcGUC-ACGCCGucgcCCGGg -3'
miRNA:   3'- -GCGCU--------UGCCU-CAGcUGCGGCuu--GGCC- -5'
8094 3' -56.4 NC_001978.2 + 8601 0.72 0.311074
Target:  5'- gCGCGAAgcauCGGGGcaCGGCG-CGAACCGGc -3'
miRNA:   3'- -GCGCUU----GCCUCa-GCUGCgGCUUGGCC- -5'
8094 3' -56.4 NC_001978.2 + 9144 0.67 0.573363
Target:  5'- aGC---CGGAGUCG-CGCCcAACUGGg -3'
miRNA:   3'- gCGcuuGCCUCAGCuGCGGcUUGGCC- -5'
8094 3' -56.4 NC_001978.2 + 11063 0.73 0.281873
Target:  5'- uCGCGAACGG-GUCGGCGUucgucugcacguUGAccgucacgccGCCGGa -3'
miRNA:   3'- -GCGCUUGCCuCAGCUGCG------------GCU----------UGGCC- -5'
8094 3' -56.4 NC_001978.2 + 11441 0.67 0.594909
Target:  5'- uCGUGAuggcACGGgcacgcaagcGGUCGGCGCCGcucGACCu- -3'
miRNA:   3'- -GCGCU----UGCC----------UCAGCUGCGGC---UUGGcc -5'
8094 3' -56.4 NC_001978.2 + 12457 0.73 0.274921
Target:  5'- gCGUGAACGuGGUCGACGCCu--UCGGc -3'
miRNA:   3'- -GCGCUUGCcUCAGCUGCGGcuuGGCC- -5'
8094 3' -56.4 NC_001978.2 + 12636 0.66 0.638299
Target:  5'- uCGUGAAccaaucgcCGGAGUCGA-GCCGcACCc- -3'
miRNA:   3'- -GCGCUU--------GCCUCAGCUgCGGCuUGGcc -5'
8094 3' -56.4 NC_001978.2 + 13196 0.69 0.449905
Target:  5'- aGCGuguCGGGGUCGgcaGCGUCGAGCgGc -3'
miRNA:   3'- gCGCuu-GCCUCAGC---UGCGGCUUGgCc -5'
8094 3' -56.4 NC_001978.2 + 13638 1.11 0.000546
Target:  5'- gCGCGAACGGAGUCGACGCCGAACCGGg -3'
miRNA:   3'- -GCGCUUGCCUCAGCUGCGGCUUGGCC- -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.