miRNA display CGI


Results 1 - 20 of 72 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
18757 3' -56.5 NC_004683.1 + 2778 1.11 0.000587
Target:  5'- aCCCAAUCGGGCCGCAUCCGCACGAACu -3'
miRNA:   3'- -GGGUUAGCCCGGCGUAGGCGUGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 40193 0.68 0.570222
Target:  5'- --uGGUCGcGGCCGCGUCCgGCugGu-- -3'
miRNA:   3'- gggUUAGC-CCGGCGUAGG-CGugCuug -5'
18757 3' -56.5 NC_004683.1 + 49289 0.67 0.580928
Target:  5'- gCCGAUCGGGauagggCGCGgguuagCCaGCACGAGg -3'
miRNA:   3'- gGGUUAGCCCg-----GCGUa-----GG-CGUGCUUg -5'
18757 3' -56.5 NC_004683.1 + 6562 0.66 0.667339
Target:  5'- aCCCGGcUCGGcGCUgGCGUCCucgacgcugGCGCGAcgACg -3'
miRNA:   3'- -GGGUU-AGCC-CGG-CGUAGG---------CGUGCU--UG- -5'
18757 3' -56.5 NC_004683.1 + 29723 0.73 0.273634
Target:  5'- gCCAuuGUCGGGCuCGUAUCCGU-CGAAg -3'
miRNA:   3'- gGGU--UAGCCCG-GCGUAGGCGuGCUUg -5'
18757 3' -56.5 NC_004683.1 + 12048 0.71 0.36564
Target:  5'- cCCCGGUgUGGGCagcgGCGguagccCCGCGCGGGCg -3'
miRNA:   3'- -GGGUUA-GCCCGg---CGUa-----GGCGUGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 1183 0.7 0.419029
Target:  5'- aCCUcggAGUCGGcGUgGCAUCCG-ACGAGCc -3'
miRNA:   3'- -GGG---UUAGCC-CGgCGUAGGCgUGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 12102 0.7 0.437848
Target:  5'- cCCCGcgCGGGCgCGCuggcCCGCGuCGAu- -3'
miRNA:   3'- -GGGUuaGCCCG-GCGua--GGCGU-GCUug -5'
18757 3' -56.5 NC_004683.1 + 33315 0.69 0.497039
Target:  5'- gCCGGgaaaCGGGCCGCcaaCCGCGCaGAGu -3'
miRNA:   3'- gGGUUa---GCCCGGCGua-GGCGUG-CUUg -5'
18757 3' -56.5 NC_004683.1 + 25977 0.68 0.548963
Target:  5'- aCCGAggcGGCCaGCGUCUGCccgGCGAACu -3'
miRNA:   3'- gGGUUagcCCGG-CGUAGGCG---UGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 46089 0.68 0.527958
Target:  5'- gCCGcGUCGGGCaGCAcUCGC-CGAACa -3'
miRNA:   3'- gGGU-UAGCCCGgCGUaGGCGuGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 49090 0.69 0.46696
Target:  5'- uCCCGGUCGGGCUugagggcgGCGggaUCGCgGCGGGCc -3'
miRNA:   3'- -GGGUUAGCCCGG--------CGUa--GGCG-UGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 48684 0.83 0.068773
Target:  5'- gCCCAGUCGGGgUGCAUCgGC-CGGGCa -3'
miRNA:   3'- -GGGUUAGCCCgGCGUAGgCGuGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 42296 0.68 0.527958
Target:  5'- aCCgGAUCcgGGGCagaUGUCCGCGCGGAUa -3'
miRNA:   3'- -GGgUUAG--CCCGgc-GUAGGCGUGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 49129 0.75 0.206479
Target:  5'- aCCCAuUCGGGCgcgUGCAUcgguagCCGUGCGAGCg -3'
miRNA:   3'- -GGGUuAGCCCG---GCGUA------GGCGUGCUUG- -5'
18757 3' -56.5 NC_004683.1 + 31724 0.7 0.457143
Target:  5'- aCCCGAccaUCaGGGCCGCAagCUGCGCuGAu- -3'
miRNA:   3'- -GGGUU---AG-CCCGGCGUa-GGCGUG-CUug -5'
18757 3' -56.5 NC_004683.1 + 12562 0.68 0.542633
Target:  5'- uUCCAGgugcccugcugcgccUCGGacaGCCGCAUCUGCGCuGAGa -3'
miRNA:   3'- -GGGUU---------------AGCC---CGGCGUAGGCGUG-CUUg -5'
18757 3' -56.5 NC_004683.1 + 21480 0.68 0.570222
Target:  5'- uCCCGAUCggaaucagcaGGGCCGCGacaucagcgCCGCAUGc-- -3'
miRNA:   3'- -GGGUUAG----------CCCGGCGUa--------GGCGUGCuug -5'
18757 3' -56.5 NC_004683.1 + 45565 0.74 0.25374
Target:  5'- gCCGGUCGGuGCggggCGCGUCgCGCGCGAGa -3'
miRNA:   3'- gGGUUAGCC-CG----GCGUAG-GCGUGCUUg -5'
18757 3' -56.5 NC_004683.1 + 15240 0.71 0.400709
Target:  5'- uCCUGAUCGccgauGuuGCGgaUCCGCACGAACc -3'
miRNA:   3'- -GGGUUAGCc----CggCGU--AGGCGUGCUUG- -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.