miRNA display CGI


Results 1 - 20 of 29 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
28174 5' -56.9 NC_005887.1 + 39035 0.66 0.571713
Target:  5'- gUUGCCCGUcuuCAGCCGaugccagagcugcgUCGCCGgcgUGa -3'
miRNA:   3'- gAACGGGCG---GUCGGUa-------------AGCGGCaa-GC- -5'
28174 5' -56.9 NC_005887.1 + 4617 0.66 0.567329
Target:  5'- -aUGCUCGCCGcggcGCCGguggcCGCCGgcgCGa -3'
miRNA:   3'- gaACGGGCGGU----CGGUaa---GCGGCaa-GC- -5'
28174 5' -56.9 NC_005887.1 + 27256 0.66 0.556407
Target:  5'- --cGCgCGCCGGCCcgcgUCGCCaaugaUCGg -3'
miRNA:   3'- gaaCGgGCGGUCGGua--AGCGGca---AGC- -5'
28174 5' -56.9 NC_005887.1 + 26849 0.66 0.545546
Target:  5'- --cGUCUGCCgguAGCCGUUgcCGCCGggCa -3'
miRNA:   3'- gaaCGGGCGG---UCGGUAA--GCGGCaaGc -5'
28174 5' -56.9 NC_005887.1 + 25650 0.66 0.545546
Target:  5'- gUUGagcuucaCCGCCAGCCGcagcgcgUCGCCaucgUCGg -3'
miRNA:   3'- gAACg------GGCGGUCGGUa------AGCGGca--AGC- -5'
28174 5' -56.9 NC_005887.1 + 8106 0.66 0.545546
Target:  5'- --aGCUCGCCGcgcucGCCGaggcgcCGCUGUUCGg -3'
miRNA:   3'- gaaCGGGCGGU-----CGGUaa----GCGGCAAGC- -5'
28174 5' -56.9 NC_005887.1 + 9927 0.66 0.534754
Target:  5'- --cG-CCGCCGGCCAcaUCGCCGccggccacgUCGa -3'
miRNA:   3'- gaaCgGGCGGUCGGUa-AGCGGCa--------AGC- -5'
28174 5' -56.9 NC_005887.1 + 34099 0.66 0.534754
Target:  5'- --aGCCUGCauauCGGUCAggaugUUGCCGUUCu -3'
miRNA:   3'- gaaCGGGCG----GUCGGUa----AGCGGCAAGc -5'
28174 5' -56.9 NC_005887.1 + 33975 0.66 0.524039
Target:  5'- --cGUCCGUCAGCaccggCGCCGUaUCa -3'
miRNA:   3'- gaaCGGGCGGUCGguaa-GCGGCA-AGc -5'
28174 5' -56.9 NC_005887.1 + 33470 0.66 0.52084
Target:  5'- -aUGUCgUGCCAGUUGUcgacguaauccggaUCGCCGUUCa -3'
miRNA:   3'- gaACGG-GCGGUCGGUA--------------AGCGGCAAGc -5'
28174 5' -56.9 NC_005887.1 + 998 0.66 0.513406
Target:  5'- aUUGCCgGCC-GCCGUgcgcgCGCUGUa-- -3'
miRNA:   3'- gAACGGgCGGuCGGUAa----GCGGCAagc -5'
28174 5' -56.9 NC_005887.1 + 28967 0.66 0.510234
Target:  5'- --cGCCgCGCCGGCCuUcagcgcgagcgccaUCGCCGggCu -3'
miRNA:   3'- gaaCGG-GCGGUCGGuA--------------AGCGGCaaGc -5'
28174 5' -56.9 NC_005887.1 + 29425 0.67 0.502863
Target:  5'- --aGCUCGUCGGCCGaguagUCGUCGgcgUCa -3'
miRNA:   3'- gaaCGGGCGGUCGGUa----AGCGGCa--AGc -5'
28174 5' -56.9 NC_005887.1 + 35405 0.67 0.492415
Target:  5'- --cGCCCGCgcaCGGCC-UUCGCCcacgagUCGa -3'
miRNA:   3'- gaaCGGGCG---GUCGGuAAGCGGca----AGC- -5'
28174 5' -56.9 NC_005887.1 + 25480 0.67 0.4617
Target:  5'- gUUGCCUGUCgAGCCGUccgCGCCG--CGg -3'
miRNA:   3'- gAACGGGCGG-UCGGUAa--GCGGCaaGC- -5'
28174 5' -56.9 NC_005887.1 + 36954 0.68 0.410043
Target:  5'- --cGCCCGCCGGUuCAccggucgcgcuggcUUCGCC-UUCGa -3'
miRNA:   3'- gaaCGGGCGGUCG-GU--------------AAGCGGcAAGC- -5'
28174 5' -56.9 NC_005887.1 + 40401 0.68 0.403493
Target:  5'- -aUGCCCgGCaCGGCCGacgUGCCGgUCGa -3'
miRNA:   3'- gaACGGG-CG-GUCGGUaa-GCGGCaAGC- -5'
28174 5' -56.9 NC_005887.1 + 14014 0.69 0.394251
Target:  5'- -aUGCCgCGCCGGCgCAgaCGCCGa--- -3'
miRNA:   3'- gaACGG-GCGGUCG-GUaaGCGGCaagc -5'
28174 5' -56.9 NC_005887.1 + 37756 0.69 0.385147
Target:  5'- --aGCCCGCCcaacuuGCCGU-CGUCGUUgCGc -3'
miRNA:   3'- gaaCGGGCGGu-----CGGUAaGCGGCAA-GC- -5'
28174 5' -56.9 NC_005887.1 + 14094 0.69 0.376183
Target:  5'- -aUGCUCGUCAGUgGUgaagCGCCGcUCGc -3'
miRNA:   3'- gaACGGGCGGUCGgUAa---GCGGCaAGC- -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.