miRNA display CGI


Results 1 - 19 of 19 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
9602 3' -56.1 NC_002577.1 + 137636 0.66 0.917505
Target:  5'- -aCCCGGCCGcUGAACGagcugguggacgcuUGCGCgCUGg -3'
miRNA:   3'- gcGGGCCGGUaGCUUGU--------------ACGUGaGAC- -5'
9602 3' -56.1 NC_002577.1 + 159701 0.66 0.917505
Target:  5'- -aCCCGGCCGcUGAACGagcugguggacgcuUGCGCgCUGg -3'
miRNA:   3'- gcGGGCCGGUaGCUUGU--------------ACGUGaGAC- -5'
9602 3' -56.1 NC_002577.1 + 53882 0.66 0.90124
Target:  5'- cCGCCCcguccaaucaucGGCCugaguUCGAAgGUGCAUagauUCUGc -3'
miRNA:   3'- -GCGGG------------CCGGu----AGCUUgUACGUG----AGAC- -5'
9602 3' -56.1 NC_002577.1 + 41162 0.66 0.90124
Target:  5'- uCGaCCUGGCC-UCGuACGUGCAgUCc- -3'
miRNA:   3'- -GC-GGGCCGGuAGCuUGUACGUgAGac -5'
9602 3' -56.1 NC_002577.1 + 159840 0.66 0.894786
Target:  5'- cCG-CCGGCCA-CGAACAgugggaaaaaUGCcggGCUCUGc -3'
miRNA:   3'- -GCgGGCCGGUaGCUUGU----------ACG---UGAGAC- -5'
9602 3' -56.1 NC_002577.1 + 137497 0.66 0.894786
Target:  5'- cCG-CCGGCCA-CGAACAgugggaaaaaUGCcggGCUCUGc -3'
miRNA:   3'- -GCgGGCCGGUaGCUUGU----------ACG---UGAGAC- -5'
9602 3' -56.1 NC_002577.1 + 41753 0.67 0.888103
Target:  5'- uCG-CgGGcCCGUCGAACGUGCACa--- -3'
miRNA:   3'- -GCgGgCC-GGUAGCUUGUACGUGagac -5'
9602 3' -56.1 NC_002577.1 + 75755 0.67 0.881197
Target:  5'- uGCCUGGCCAUCuuuucGCAUGCcCUa-- -3'
miRNA:   3'- gCGGGCCGGUAGcu---UGUACGuGAgac -5'
9602 3' -56.1 NC_002577.1 + 64844 0.68 0.843472
Target:  5'- aGCCgagagGGCCAUUGAgcACAUGCACgCUu -3'
miRNA:   3'- gCGGg----CCGGUAGCU--UGUACGUGaGAc -5'
9602 3' -56.1 NC_002577.1 + 112443 0.68 0.843472
Target:  5'- gGUCCcGCCGUCGAAaGUGCAgaCUGc -3'
miRNA:   3'- gCGGGcCGGUAGCUUgUACGUgaGAC- -5'
9602 3' -56.1 NC_002577.1 + 38157 0.7 0.742234
Target:  5'- cCGCCCGcGCCAgaggccaauugaacUCGGcgccgGCAUGCGCUgCUa -3'
miRNA:   3'- -GCGGGC-CGGU--------------AGCU-----UGUACGUGA-GAc -5'
9602 3' -56.1 NC_002577.1 + 161462 0.7 0.715756
Target:  5'- gGCCaGGCCAUCGGACGgaGCAUuggCUGc -3'
miRNA:   3'- gCGGgCCGGUAGCUUGUa-CGUGa--GAC- -5'
9602 3' -56.1 NC_002577.1 + 139027 0.7 0.715756
Target:  5'- gGUCCGGCCAUCGAaaaACggGUcagacCUCUGu -3'
miRNA:   3'- gCGGGCCGGUAGCU---UGuaCGu----GAGAC- -5'
9602 3' -56.1 NC_002577.1 + 135875 0.7 0.715755
Target:  5'- gGCCaGGCCAUCGGACGgaGCAUuggCUGc -3'
miRNA:   3'- gCGGgCCGGUAGCUUGUa-CGUGa--GAC- -5'
9602 3' -56.1 NC_002577.1 + 158311 0.7 0.715755
Target:  5'- gGUCCGGCCAUCGAaaaACggGUcagacCUCUGu -3'
miRNA:   3'- gCGGGCCGGUAGCU---UGuaCGu----GAGAC- -5'
9602 3' -56.1 NC_002577.1 + 38354 0.7 0.705808
Target:  5'- uCGCCCGGCCcgcCGGGCGacaaaUGCGCUg-- -3'
miRNA:   3'- -GCGGGCCGGua-GCUUGU-----ACGUGAgac -5'
9602 3' -56.1 NC_002577.1 + 159956 0.73 0.563913
Target:  5'- gCGCCCGGaCCGUCGggUccGCGCa--- -3'
miRNA:   3'- -GCGGGCC-GGUAGCuuGuaCGUGagac -5'
9602 3' -56.1 NC_002577.1 + 137382 0.73 0.563913
Target:  5'- gCGCCCGGaCCGUCGggUccGCGCa--- -3'
miRNA:   3'- -GCGGGCC-GGUAGCuuGuaCGUGagac -5'
9602 3' -56.1 NC_002577.1 + 15772 1.07 0.003821
Target:  5'- uCGCCCGGCCAUCGAACAUGCACUCUGc -3'
miRNA:   3'- -GCGGGCCGGUAGCUUGUACGUGAGAC- -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.