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 + 34616 1.08 0.000577
Target:  5'- cCUUGCCCGCCAGCCAUUCGCCGUUCGc -3'
miRNA:   3'- -GAACGGGCGGUCGGUAAGCGGCAAGC- -5'
28174 5' -56.9 NC_005887.1 + 30205 0.74 0.16888
Target:  5'- --cGCCgGCCAGCCA--CGCCGcgUCGc -3'
miRNA:   3'- gaaCGGgCGGUCGGUaaGCGGCa-AGC- -5'
28174 5' -56.9 NC_005887.1 + 20195 0.72 0.233413
Target:  5'- uUUGCgCGUCAGCCcUUCGCCGa--- -3'
miRNA:   3'- gAACGgGCGGUCGGuAAGCGGCaagc -5'
28174 5' -56.9 NC_005887.1 + 8978 0.72 0.252501
Target:  5'- -cUGCCCGCCGGCgCGUgcacaucCGCUGcagUCGg -3'
miRNA:   3'- gaACGGGCGGUCG-GUAa------GCGGCa--AGC- -5'
28174 5' -56.9 NC_005887.1 + 39715 0.71 0.272856
Target:  5'- -gUGCCCGCC-GCCAccucauccUCGCgCGUUCu -3'
miRNA:   3'- gaACGGGCGGuCGGUa-------AGCG-GCAAGc -5'
28174 5' -56.9 NC_005887.1 + 11870 0.71 0.272856
Target:  5'- --cGCUCGgCGGUCuUUCGUCGUUCGg -3'
miRNA:   3'- gaaCGGGCgGUCGGuAAGCGGCAAGC- -5'
28174 5' -56.9 NC_005887.1 + 23888 0.71 0.279927
Target:  5'- cCUUGCCCGCgAGCagguucUUCGCCugcgUCGa -3'
miRNA:   3'- -GAACGGGCGgUCGgu----AAGCGGca--AGC- -5'
28174 5' -56.9 NC_005887.1 + 29700 0.7 0.309669
Target:  5'- -cUGCaCGCgCAGCCAcUCGCCGUcgCGu -3'
miRNA:   3'- gaACGgGCG-GUCGGUaAGCGGCAa-GC- -5'
28174 5' -56.9 NC_005887.1 + 7292 0.7 0.32542
Target:  5'- --cGCCCGCUgugGGUCGUcgugUCGCCGUccgUCGc -3'
miRNA:   3'- gaaCGGGCGG---UCGGUA----AGCGGCA---AGC- -5'
28174 5' -56.9 NC_005887.1 + 14094 0.69 0.376183
Target:  5'- -aUGCUCGUCAGUgGUgaagCGCCGcUCGc -3'
miRNA:   3'- gaACGGGCGGUCGgUAa---GCGGCaAGC- -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 + 14014 0.69 0.394251
Target:  5'- -aUGCCgCGCCGGCgCAgaCGCCGa--- -3'
miRNA:   3'- gaACGG-GCGGUCG-GUaaGCGGCaagc -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 + 36954 0.68 0.410043
Target:  5'- --cGCCCGCCGGUuCAccggucgcgcuggcUUCGCC-UUCGa -3'
miRNA:   3'- gaaCGGGCGGUCG-GU--------------AAGCGGcAAGC- -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 + 35405 0.67 0.492415
Target:  5'- --cGCCCGCgcaCGGCC-UUCGCCcacgagUCGa -3'
miRNA:   3'- gaaCGGGCG---GUCGGuAAGCGGca----AGC- -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 + 28967 0.66 0.510234
Target:  5'- --cGCCgCGCCGGCCuUcagcgcgagcgccaUCGCCGggCu -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 + 33470 0.66 0.52084
Target:  5'- -aUGUCgUGCCAGUUGUcgacguaauccggaUCGCCGUUCa -3'
miRNA:   3'- gaACGG-GCGGUCGGUA--------------AGCGGCAAGc -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.