miRNA display CGI


Results 1 - 20 of 32 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
23604 3' -52.8 NC_005261.1 + 4157 0.66 0.972592
Target:  5'- aGCAG-GCGcgccAGCUg--C-AGGUCCGGGc -3'
miRNA:   3'- -CGUCaCGC----UCGAauaGcUCCAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 13701 0.66 0.96656
Target:  5'- gGCGGgGCGGGCUgggggCGGGGgUgGGGg -3'
miRNA:   3'- -CGUCaCGCUCGAaua--GCUCCaGgUCC- -5'
23604 3' -52.8 NC_005261.1 + 19339 0.66 0.977796
Target:  5'- cGCAcGUGCcAGCagcUCGGGGgaguucgucUCCAGGg -3'
miRNA:   3'- -CGU-CACGcUCGaauAGCUCC---------AGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 22036 0.67 0.959647
Target:  5'- gGCGGgGUucagGGGCUccggCGGGGUUCAGGg -3'
miRNA:   3'- -CGUCaCG----CUCGAaua-GCUCCAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 24373 0.68 0.916088
Target:  5'- gGCGGUGCucccgguGGGCUcGUCGGcggcggggcGGUCCuGGg -3'
miRNA:   3'- -CGUCACG-------CUCGAaUAGCU---------CCAGGuCC- -5'
23604 3' -52.8 NC_005261.1 + 29350 0.66 0.96656
Target:  5'- gGCGGcGCGGGCgacacUcgCGAGGgccUCUGGGa -3'
miRNA:   3'- -CGUCaCGCUCGa----AuaGCUCC---AGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 33609 0.7 0.853944
Target:  5'- cCGGcGCGGGCgg--CGGGGcCCGGGg -3'
miRNA:   3'- cGUCaCGCUCGaauaGCUCCaGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 33801 0.76 0.538915
Target:  5'- cGCGGgcgGCGGGCUUGUCuuuGGgcggCCGGGg -3'
miRNA:   3'- -CGUCa--CGCUCGAAUAGcu-CCa---GGUCC- -5'
23604 3' -52.8 NC_005261.1 + 36282 0.66 0.969683
Target:  5'- -aAGUGCGGGCgcggCcGGGaCCGGGa -3'
miRNA:   3'- cgUCACGCUCGaauaGcUCCaGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 40460 0.69 0.884165
Target:  5'- aGCAcacgGCGAcCUUGUCGAGGcUCAGGc -3'
miRNA:   3'- -CGUca--CGCUcGAAUAGCUCCaGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 40984 0.7 0.876947
Target:  5'- uGCAGUa-GAGCaaGUCGAGGguccccucgUCCAGGg -3'
miRNA:   3'- -CGUCAcgCUCGaaUAGCUCC---------AGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 42854 0.66 0.975294
Target:  5'- -gAGUGCGAGCgcGUCGu-GUCCGa- -3'
miRNA:   3'- cgUCACGCUCGaaUAGCucCAGGUcc -5'
23604 3' -52.8 NC_005261.1 + 43390 0.67 0.963217
Target:  5'- cGCGGUGCcGGCaccGUCcAGGcgCCGGGg -3'
miRNA:   3'- -CGUCACGcUCGaa-UAGcUCCa-GGUCC- -5'
23604 3' -52.8 NC_005261.1 + 46031 0.68 0.927959
Target:  5'- aGCAGgacGgGGGCgcgGUagaGGGUCCAGGg -3'
miRNA:   3'- -CGUCa--CgCUCGaa-UAgc-UCCAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 58368 0.66 0.96656
Target:  5'- aGguGUGCG-GCgacGUCGGccUCCAGGg -3'
miRNA:   3'- -CguCACGCuCGaa-UAGCUccAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 58864 0.66 0.96656
Target:  5'- cGUAGUG-GaAGCgcUGggGAGGUCCGGGc -3'
miRNA:   3'- -CGUCACgC-UCGa-AUagCUCCAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 64518 0.68 0.916678
Target:  5'- cGCGG-GCG-GCUccucGUCGgggggcAGGUCCGGGa -3'
miRNA:   3'- -CGUCaCGCuCGAa---UAGC------UCCAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 69745 0.67 0.959647
Target:  5'- gGCGGaggaggagGCGAGCg---CGGGGggcggcgCCGGGg -3'
miRNA:   3'- -CGUCa-------CGCUCGaauaGCUCCa------GGUCC- -5'
23604 3' -52.8 NC_005261.1 + 70737 0.66 0.977796
Target:  5'- aGCAcGUGCGc-CUccUCGAgcaGGUCCAGGc -3'
miRNA:   3'- -CGU-CACGCucGAauAGCU---CCAGGUCC- -5'
23604 3' -52.8 NC_005261.1 + 73275 0.68 0.935261
Target:  5'- gGCAGUaGCGGGCgaa--GGGGUagcacaggcaggcggCCAGGg -3'
miRNA:   3'- -CGUCA-CGCUCGaauagCUCCA---------------GGUCC- -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.