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 + 9699 1.1 0.000363
Target:  5'- cGCUUUGCCUGCUCGACCGCUGCGGCGc -3'
miRNA:   3'- -CGAAACGGACGAGCUGGCGACGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 7118 0.79 0.076371
Target:  5'- cGUUUcGCCUGCcgugCGACCGaCUGUGGCGu -3'
miRNA:   3'- -CGAAaCGGACGa---GCUGGC-GACGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 8820 0.75 0.130522
Target:  5'- ----cGCCUGC-CGGCCGCU-CGGCGu -3'
miRNA:   3'- cgaaaCGGACGaGCUGGCGAcGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 21443 0.75 0.133079
Target:  5'- ----cGCCUGCcCGAauccggaagcgccaCCGCUGCGGCGc -3'
miRNA:   3'- cgaaaCGGACGaGCU--------------GGCGACGCCGC- -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 + 33972 0.74 0.15398
Target:  5'- gGCg--GCCgcGCU-GGCCGCUGCGGCu -3'
miRNA:   3'- -CGaaaCGGa-CGAgCUGGCGACGCCGc -5'
24258 3' -58.1 NC_005263.2 + 18907 0.73 0.181197
Target:  5'- cGCgccgGCCUGCgucgagcgUGACCGC-GCGGCa -3'
miRNA:   3'- -CGaaa-CGGACGa-------GCUGGCGaCGCCGc -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 + 29490 0.73 0.181197
Target:  5'- --gUUGCCaccUGCcgCGaacGCCGCUGCGGCGu -3'
miRNA:   3'- cgaAACGG---ACGa-GC---UGGCGACGCCGC- -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 + 26192 0.71 0.248544
Target:  5'- uGCg--GCC-GCgcggCGGCCGCgcgaUGCGGCGg -3'
miRNA:   3'- -CGaaaCGGaCGa---GCUGGCG----ACGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 7485 0.71 0.261601
Target:  5'- cGCUUgGCCucgaagUGCcgCGcACCGCUGaCGGCGa -3'
miRNA:   3'- -CGAAaCGG------ACGa-GC-UGGCGAC-GCCGC- -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 + 28216 0.71 0.275211
Target:  5'- aGCUguuggugGCCUGCaUCGGCCGCgcucGCcGCGc -3'
miRNA:   3'- -CGAaa-----CGGACG-AGCUGGCGa---CGcCGC- -5'
24258 3' -58.1 NC_005263.2 + 17386 0.7 0.296679
Target:  5'- aGCUgucUGCCgGCgCGGCCGCgcgccugGCgGGCGg -3'
miRNA:   3'- -CGAa--ACGGaCGaGCUGGCGa------CG-CCGC- -5'
24258 3' -58.1 NC_005263.2 + 3304 0.7 0.296679
Target:  5'- --cUUGCCUGggcgCGGCCGC-GCGGUGu -3'
miRNA:   3'- cgaAACGGACga--GCUGGCGaCGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 12207 0.7 0.30262
Target:  5'- ----cGCCUGUgucUCGACCGCaccgacaucaacGCGGCGa -3'
miRNA:   3'- cgaaaCGGACG---AGCUGGCGa-----------CGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 3754 0.69 0.335303
Target:  5'- ----cGCCUGCUCG-CgCGCgggcaGCGGCa -3'
miRNA:   3'- cgaaaCGGACGAGCuG-GCGa----CGCCGc -5'
24258 3' -58.1 NC_005263.2 + 5483 0.69 0.335303
Target:  5'- uGCUUcGUgCUGCUCGACaggggGC-GCGGCGa -3'
miRNA:   3'- -CGAAaCG-GACGAGCUGg----CGaCGCCGC- -5'
24258 3' -58.1 NC_005263.2 + 15475 0.69 0.343456
Target:  5'- -aUUUGCCgUGCUgCGGCgGC-GCGGUGa -3'
miRNA:   3'- cgAAACGG-ACGA-GCUGgCGaCGCCGC- -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.