miRNA display CGI


Results 1 - 20 of 93 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
23225 5' -61.4 NC_005259.1 + 65987 0.66 0.490189
Target:  5'- cGCGCCgagcagccgcUCGACGUGgUgCGCaccCUCGGGg -3'
miRNA:   3'- aCGUGG----------AGCUGCGCgA-GCG---GAGCCCg -5'
23225 5' -61.4 NC_005259.1 + 68415 0.72 0.195965
Target:  5'- cGUagACCUUGACGC-CUCGCg-CGGGCc -3'
miRNA:   3'- aCG--UGGAGCUGCGcGAGCGgaGCCCG- -5'
23225 5' -61.4 NC_005259.1 + 17740 0.72 0.210242
Target:  5'- gGCugCUCGACGCGauccgugaggcCGCCgcgcgcCGGGCc -3'
miRNA:   3'- aCGugGAGCUGCGCga---------GCGGa-----GCCCG- -5'
23225 5' -61.4 NC_005259.1 + 31664 0.71 0.222081
Target:  5'- cUGCuugACCUCGACGgGgUUGCC-CGaGGCa -3'
miRNA:   3'- -ACG---UGGAGCUGCgCgAGCGGaGC-CCG- -5'
23225 5' -61.4 NC_005259.1 + 34889 0.71 0.229907
Target:  5'- gGUGCCUCGggcaggacggGC-CGCUCgggcaucacacugcuGCCUCGGGCg -3'
miRNA:   3'- aCGUGGAGC----------UGcGCGAG---------------CGGAGCCCG- -5'
23225 5' -61.4 NC_005259.1 + 3852 0.71 0.233332
Target:  5'- cGCACCgUCGACGC-CggucgagCGCCUCGaGCc -3'
miRNA:   3'- aCGUGG-AGCUGCGcGa------GCGGAGCcCG- -5'
23225 5' -61.4 NC_005259.1 + 19190 0.71 0.233332
Target:  5'- gUGC-CCUCGACaGCgaGCUCGUggugCGGGCg -3'
miRNA:   3'- -ACGuGGAGCUG-CG--CGAGCGga--GCCCG- -5'
23225 5' -61.4 NC_005259.1 + 24266 0.71 0.239135
Target:  5'- gUGCACgcguggCUgGAaGCGCUCGaCCUCGGGa -3'
miRNA:   3'- -ACGUG------GAgCUgCGCGAGC-GGAGCCCg -5'
23225 5' -61.4 NC_005259.1 + 65789 0.71 0.239135
Target:  5'- cGCcaugGCCUCGACGCGCUgGUCgaaacgCuGGCc -3'
miRNA:   3'- aCG----UGGAGCUGCGCGAgCGGa-----GcCCG- -5'
23225 5' -61.4 NC_005259.1 + 34377 0.72 0.195965
Target:  5'- cGCguaACCUCGACGCGCaacUGCUgcucgacCGGGCu -3'
miRNA:   3'- aCG---UGGAGCUGCGCGa--GCGGa------GCCCG- -5'
23225 5' -61.4 NC_005259.1 + 58831 0.73 0.181153
Target:  5'- gGCAcCCUCGcCGCcCUCGgucucacCCUCGGGCu -3'
miRNA:   3'- aCGU-GGAGCuGCGcGAGC-------GGAGCCCG- -5'
23225 5' -61.4 NC_005259.1 + 48490 0.73 0.172572
Target:  5'- cUGUuCCUCGACGCGCUUGa---GGGCc -3'
miRNA:   3'- -ACGuGGAGCUGCGCGAGCggagCCCG- -5'
23225 5' -61.4 NC_005259.1 + 29830 0.79 0.059161
Target:  5'- aGCGCCUCGGCaugaaauccguuCGCUCGCUgUCGGGCa -3'
miRNA:   3'- aCGUGGAGCUGc-----------GCGAGCGG-AGCCCG- -5'
23225 5' -61.4 NC_005259.1 + 14320 0.76 0.113658
Target:  5'- cGC-CCUCGACGcCGC-CGCCcgcgugCGGGCc -3'
miRNA:   3'- aCGuGGAGCUGC-GCGaGCGGa-----GCCCG- -5'
23225 5' -61.4 NC_005259.1 + 45733 0.75 0.133152
Target:  5'- cGCACCacCGAggcCGCGCacCGCCUCGGGg -3'
miRNA:   3'- aCGUGGa-GCU---GCGCGa-GCGGAGCCCg -5'
23225 5' -61.4 NC_005259.1 + 55037 0.74 0.140308
Target:  5'- gGCugC-CGAgGUGCUUGCCUCGGugGCa -3'
miRNA:   3'- aCGugGaGCUgCGCGAGCGGAGCC--CG- -5'
23225 5' -61.4 NC_005259.1 + 36230 0.74 0.144016
Target:  5'- aGCACCUUGGCcaGCGCgagCGCCUgCGucGGCa -3'
miRNA:   3'- aCGUGGAGCUG--CGCGa--GCGGA-GC--CCG- -5'
23225 5' -61.4 NC_005259.1 + 52393 0.74 0.146665
Target:  5'- aGCcuGCCUCGggccaucgagguguGgGCGCUCGaCUCGGGCg -3'
miRNA:   3'- aCG--UGGAGC--------------UgCGCGAGCgGAGCCCG- -5'
23225 5' -61.4 NC_005259.1 + 63206 0.73 0.17213
Target:  5'- gUGCGCCUCGAcCGC-CUCGUCagacagaUCGGGg -3'
miRNA:   3'- -ACGUGGAGCU-GCGcGAGCGG-------AGCCCg -5'
23225 5' -61.4 NC_005259.1 + 64773 0.73 0.17213
Target:  5'- gUGCGCCUCGGCGgccCGCUgcgacuggcugugUGCCUCGGccucgGCg -3'
miRNA:   3'- -ACGUGGAGCUGC---GCGA-------------GCGGAGCC-----CG- -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.