miRNA display CGI


Results 1 - 20 of 25 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
33068 3' -56.7 NC_007497.1 + 41526 0.66 0.596807
Target:  5'- gGGCgCGCUG-UUGCgCGGCACGcUGAa -3'
miRNA:   3'- gUCGaGCGACuAGCG-GCUGUGCcACU- -5'
33068 3' -56.7 NC_007497.1 + 8530 0.66 0.596807
Target:  5'- -uGCg-GCUGAUCGUCGGCuGCGGa-- -3'
miRNA:   3'- guCGagCGACUAGCGGCUG-UGCCacu -5'
33068 3' -56.7 NC_007497.1 + 21693 0.66 0.585812
Target:  5'- -cGC-CGCUGAUCGCUGGaaacgcaGCGGa-- -3'
miRNA:   3'- guCGaGCGACUAGCGGCUg------UGCCacu -5'
33068 3' -56.7 NC_007497.1 + 44556 0.66 0.574856
Target:  5'- cCGGCUgcugaGaCUGAUCGCCGGCAuUGGa-- -3'
miRNA:   3'- -GUCGAg----C-GACUAGCGGCUGU-GCCacu -5'
33068 3' -56.7 NC_007497.1 + 21345 0.66 0.563947
Target:  5'- uCAGCUCGCUG-UCGCUaGACAgcgagcauCGGa-- -3'
miRNA:   3'- -GUCGAGCGACuAGCGG-CUGU--------GCCacu -5'
33068 3' -56.7 NC_007497.1 + 27952 0.67 0.542304
Target:  5'- gCAGCUUGC-GGUCGauGAUuuCGGUGAu -3'
miRNA:   3'- -GUCGAGCGaCUAGCggCUGu-GCCACU- -5'
33068 3' -56.7 NC_007497.1 + 44115 0.67 0.520943
Target:  5'- -uGCUCGCUGcauUCGCCGAa--GGUc- -3'
miRNA:   3'- guCGAGCGACu--AGCGGCUgugCCAcu -5'
33068 3' -56.7 NC_007497.1 + 16868 0.67 0.517767
Target:  5'- gGGCguaucgaucggCGCUGAUgcgggcugcucgucCGCCGGCGCGGg-- -3'
miRNA:   3'- gUCGa----------GCGACUA--------------GCGGCUGUGCCacu -5'
33068 3' -56.7 NC_007497.1 + 35998 0.67 0.499919
Target:  5'- uCAGCUCGUcGAUuaUGCCGACGa-GUGGa -3'
miRNA:   3'- -GUCGAGCGaCUA--GCGGCUGUgcCACU- -5'
33068 3' -56.7 NC_007497.1 + 3800 0.67 0.489548
Target:  5'- -cGCUCGgucgaCUGAagGCCGGCGCGaUGAa -3'
miRNA:   3'- guCGAGC-----GACUagCGGCUGUGCcACU- -5'
33068 3' -56.7 NC_007497.1 + 35084 0.68 0.469116
Target:  5'- gCAGUccgCGUUGAUCGCCGgcucgauucgauACACGGa-- -3'
miRNA:   3'- -GUCGa--GCGACUAGCGGC------------UGUGCCacu -5'
33068 3' -56.7 NC_007497.1 + 18784 0.68 0.459065
Target:  5'- aAGCUgCGCaGAUaCGCCGGCAguggauuugUGGUGGa -3'
miRNA:   3'- gUCGA-GCGaCUA-GCGGCUGU---------GCCACU- -5'
33068 3' -56.7 NC_007497.1 + 1093 0.68 0.44913
Target:  5'- gCAGCgcgCGCgaUGAUCaCUG-CACGGUGAa -3'
miRNA:   3'- -GUCGa--GCG--ACUAGcGGCuGUGCCACU- -5'
33068 3' -56.7 NC_007497.1 + 16155 0.69 0.40132
Target:  5'- aCGGCguugCGCUGAUC-CCGGCACGc--- -3'
miRNA:   3'- -GUCGa---GCGACUAGcGGCUGUGCcacu -5'
33068 3' -56.7 NC_007497.1 + 27237 0.69 0.392153
Target:  5'- aCGGCgUGCUGGUCGguCCGGgGCaGGUGAu -3'
miRNA:   3'- -GUCGaGCGACUAGC--GGCUgUG-CCACU- -5'
33068 3' -56.7 NC_007497.1 + 30420 0.69 0.382228
Target:  5'- cCGGCgcaCGCUGG-CGaaguaucUCGACGCGGUGAa -3'
miRNA:   3'- -GUCGa--GCGACUaGC-------GGCUGUGCCACU- -5'
33068 3' -56.7 NC_007497.1 + 34567 0.7 0.374233
Target:  5'- cCGGCaUC-CUGAcgacCGUCGGCACGGUGGc -3'
miRNA:   3'- -GUCG-AGcGACUa---GCGGCUGUGCCACU- -5'
33068 3' -56.7 NC_007497.1 + 33400 0.71 0.323888
Target:  5'- -cGCgcaGCUGcgCGUCGAgGCGGUGGc -3'
miRNA:   3'- guCGag-CGACuaGCGGCUgUGCCACU- -5'
33068 3' -56.7 NC_007497.1 + 35796 0.71 0.323093
Target:  5'- uCGGCcCGCUGGUCGagaCGAUcagcaagGCGGUGGc -3'
miRNA:   3'- -GUCGaGCGACUAGCg--GCUG-------UGCCACU- -5'
33068 3' -56.7 NC_007497.1 + 8222 0.71 0.316004
Target:  5'- aGGcCUCGCUGGgccuugaugUCGCUGagaaGCGCGGUGGc -3'
miRNA:   3'- gUC-GAGCGACU---------AGCGGC----UGUGCCACU- -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.