miRNA display CGI


Results 1 - 20 of 41 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
24258 3' -58.1 NC_005263.2 + 47694 0.68 0.377475
Target:  5'- uGCUgUGCggcaagCUGCUCGGCaCGCUGaucauCGGCa -3'
miRNA:   3'- -CGAaACG------GACGAGCUG-GCGAC-----GCCGc -5'
24258 3' -58.1 NC_005263.2 + 46161 0.66 0.50239
Target:  5'- cGCggUUGCCgGCgUCG-CCGgUGCcGGCGc -3'
miRNA:   3'- -CGa-AACGGaCG-AGCuGGCgACG-CCGC- -5'
24258 3' -58.1 NC_005263.2 + 45412 0.66 0.533798
Target:  5'- aCUcgGUCUG-UCGGCCGCcGCcGGCGc -3'
miRNA:   3'- cGAaaCGGACgAGCUGGCGaCG-CCGC- -5'
24258 3' -58.1 NC_005263.2 + 44749 0.75 0.134189
Target:  5'- cGCacUGUCUggucGCUCGACCGCgcGCGGCGc -3'
miRNA:   3'- -CGaaACGGA----CGAGCUGGCGa-CGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 44595 0.71 0.247906
Target:  5'- cGCUgaagaagaUUGCCgcgcgcgacaacuUGCcCGACuCGCUGCGGCa -3'
miRNA:   3'- -CGA--------AACGG-------------ACGaGCUG-GCGACGCCGc -5'
24258 3' -58.1 NC_005263.2 + 41538 0.68 0.404436
Target:  5'- ----cGCCUGCgcaaacgcgCGGCgCGCcgugGCGGCGa -3'
miRNA:   3'- cgaaaCGGACGa--------GCUG-GCGa---CGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 41480 0.67 0.461836
Target:  5'- cGCgcga-CUGCUCGACCGCgccgaGCGcGCc -3'
miRNA:   3'- -CGaaacgGACGAGCUGGCGa----CGC-CGc -5'
24258 3' -58.1 NC_005263.2 + 37924 0.71 0.268337
Target:  5'- gGCUUcgGCCUGCUCGcgauUCGCgcucuCGGCGa -3'
miRNA:   3'- -CGAAa-CGGACGAGCu---GGCGac---GCCGC- -5'
24258 3' -58.1 NC_005263.2 + 36163 0.68 0.377475
Target:  5'- gGCgacgGCCUGCgCGACCGgUGCGa-- -3'
miRNA:   3'- -CGaaa-CGGACGaGCUGGCgACGCcgc -5'
24258 3' -58.1 NC_005263.2 + 35959 0.69 0.35175
Target:  5'- cGCUgcgUGCaaggcGCUCGACCGCcuggaGCGcGCGu -3'
miRNA:   3'- -CGAa--ACGga---CGAGCUGGCGa----CGC-CGC- -5'
24258 3' -58.1 NC_005263.2 + 35834 0.67 0.423072
Target:  5'- cGCUUgUGcCCUGCaggUCGGCaaaaaacaacgGCUGCGGCa -3'
miRNA:   3'- -CGAA-AC-GGACG---AGCUGg----------CGACGCCGc -5'
24258 3' -58.1 NC_005263.2 + 33972 0.74 0.15398
Target:  5'- gGCg--GCCgcGCU-GGCCGCUGCGGCu -3'
miRNA:   3'- -CGaaaCGGa-CGAgCUGGCGACGCCGc -5'
24258 3' -58.1 NC_005263.2 + 31611 0.67 0.423072
Target:  5'- ---aUGCCggucGCgaCGGCCGC-GCGGCGc -3'
miRNA:   3'- cgaaACGGa---CGa-GCUGGCGaCGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 29490 0.73 0.181197
Target:  5'- --gUUGCCaccUGCcgCGaacGCCGCUGCGGCGu -3'
miRNA:   3'- cgaAACGG---ACGa-GC---UGGCGACGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 29226 0.66 0.492099
Target:  5'- -aUUUGCCg--UCGGCgCGCaGCGGCGc -3'
miRNA:   3'- cgAAACGGacgAGCUG-GCGaCGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 28216 0.71 0.275211
Target:  5'- aGCUguuggugGCCUGCaUCGGCCGCgcucGCcGCGc -3'
miRNA:   3'- -CGAaa-----CGGACG-AGCUGGCGa---CGcCGC- -5'
24258 3' -58.1 NC_005263.2 + 26291 0.67 0.442214
Target:  5'- cGCgagaaugGCUUGCUCGccgGCCaGCUGCaGGCc -3'
miRNA:   3'- -CGaaa----CGGACGAGC---UGG-CGACG-CCGc -5'
24258 3' -58.1 NC_005263.2 + 26192 0.71 0.248544
Target:  5'- uGCg--GCC-GCgcggCGGCCGCgcgaUGCGGCGg -3'
miRNA:   3'- -CGaaaCGGaCGa---GCUGGCG----ACGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 22500 0.73 0.181197
Target:  5'- gGCg--GCCggcggcgGUUCGGCgGCUGCGGCc -3'
miRNA:   3'- -CGaaaCGGa------CGAGCUGgCGACGCCGc -5'
24258 3' -58.1 NC_005263.2 + 21443 0.75 0.133079
Target:  5'- ----cGCCUGCcCGAauccggaagcgccaCCGCUGCGGCGc -3'
miRNA:   3'- cgaaaCGGACGaGCU--------------GGCGACGCCGC- -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.