miRNA display CGI


Results 1 - 20 of 61 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
28051 3' -60.9 NC_005887.1 + 29505 0.68 0.253973
Target:  5'- gGCGGCCu-CGACggCGGGCGCguuguagaacAGCacgUCg -3'
miRNA:   3'- -CGCCGGucGCUGa-GCCCGCG----------UCGa--AG- -5'
28051 3' -60.9 NC_005887.1 + 4405 0.7 0.195877
Target:  5'- uGCGcGCCGGCGAa---GGCGCGGCg-- -3'
miRNA:   3'- -CGC-CGGUCGCUgagcCCGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 23251 0.7 0.195877
Target:  5'- gGCGGUCGGCGcGCaaaaGGCGCAGCUc- -3'
miRNA:   3'- -CGCCGGUCGC-UGagc-CCGCGUCGAag -5'
28051 3' -60.9 NC_005887.1 + 11001 0.69 0.20112
Target:  5'- aUGGCgUGGUG-CUCGGGUGCGGCggUCu -3'
miRNA:   3'- cGCCG-GUCGCuGAGCCCGCGUCGa-AG- -5'
28051 3' -60.9 NC_005887.1 + 26335 0.69 0.206485
Target:  5'- cGUGGCCGGCGcugGC-CGGGUGC-GCg-- -3'
miRNA:   3'- -CGCCGGUCGC---UGaGCCCGCGuCGaag -5'
28051 3' -60.9 NC_005887.1 + 27827 0.69 0.214202
Target:  5'- aGCGGCUuucaCGACUucgccccuucgggaaCGGuGCGCAGCUUUu -3'
miRNA:   3'- -CGCCGGuc--GCUGA---------------GCC-CGCGUCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 14207 0.69 0.217585
Target:  5'- cGCGGCCucggacagGGCGGCgccgCGcuguucGGCGCGGCaUCc -3'
miRNA:   3'- -CGCCGG--------UCGCUGa---GC------CCGCGUCGaAG- -5'
28051 3' -60.9 NC_005887.1 + 1997 0.68 0.247578
Target:  5'- cCGGCCGGCuACUaCGaGCGCGGCa-- -3'
miRNA:   3'- cGCCGGUCGcUGA-GCcCGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 22244 0.68 0.253327
Target:  5'- cGUGGUucacgauCAGCGACggUGGcGCGCAGCa-- -3'
miRNA:   3'- -CGCCG-------GUCGCUGa-GCC-CGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 41623 0.7 0.182803
Target:  5'- cGCGGCCcgugaggaucugcuGCGuCUgCGcGGCGCAcGCUUCg -3'
miRNA:   3'- -CGCCGGu-------------CGCuGA-GC-CCGCGU-CGAAG- -5'
28051 3' -60.9 NC_005887.1 + 28772 0.7 0.176086
Target:  5'- aCGGCCGGCGAUUUuuuGauaaGCAGCUUCg -3'
miRNA:   3'- cGCCGGUCGCUGAGcc-Cg---CGUCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 20537 0.7 0.176086
Target:  5'- -gGGCCuuGCG--UCGGGCGCAGCcggaUUCg -3'
miRNA:   3'- cgCCGGu-CGCugAGCCCGCGUCG----AAG- -5'
28051 3' -60.9 NC_005887.1 + 41591 0.74 0.101682
Target:  5'- uCGGCCAGCGGCggccCaGGUGCGGCg-- -3'
miRNA:   3'- cGCCGGUCGCUGa---GcCCGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 32435 0.73 0.116897
Target:  5'- uGUGGCCGGCGGCgaucaGGuuGCGCAGCc-- -3'
miRNA:   3'- -CGCCGGUCGCUGag---CC--CGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 24542 0.73 0.119189
Target:  5'- cGCGGCCGcaccuuCGGC-CGGGCGCccaugaucgccgucAGCUUCa -3'
miRNA:   3'- -CGCCGGUc-----GCUGaGCCCGCG--------------UCGAAG- -5'
28051 3' -60.9 NC_005887.1 + 11530 0.73 0.120184
Target:  5'- cGCGGUcaagcugauCAGCaGCUCGGcGCGCAGCg-- -3'
miRNA:   3'- -CGCCG---------GUCGcUGAGCC-CGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 1486 0.71 0.158094
Target:  5'- aCGGCguGCGGCgcucgCGcGGCGCGGCc-- -3'
miRNA:   3'- cGCCGguCGCUGa----GC-CCGCGUCGaag -5'
28051 3' -60.9 NC_005887.1 + 3016 0.71 0.158094
Target:  5'- uGCGGCCAGCGcCgCGGGCaaAGCc-- -3'
miRNA:   3'- -CGCCGGUCGCuGaGCCCGcgUCGaag -5'
28051 3' -60.9 NC_005887.1 + 32756 0.71 0.164195
Target:  5'- uGCGcGCCGGCGcgcgccaugcagccgGCUCGuGCGCAGgaUCg -3'
miRNA:   3'- -CGC-CGGUCGC---------------UGAGCcCGCGUCgaAG- -5'
28051 3' -60.9 NC_005887.1 + 27150 0.71 0.166873
Target:  5'- cGCGGCCGaaCGGCcaCGGGCGCGGgUUg -3'
miRNA:   3'- -CGCCGGUc-GCUGa-GCCCGCGUCgAAg -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.