miRNA display CGI


Results 1 - 16 of 16 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
23608 3' -54.1 NC_005261.1 + 113341 0.66 0.933545
Target:  5'- gCGCGGcacggGCUGUacaACGCGCaGUUCGUc -3'
miRNA:   3'- aGCGUCag---CGACA---UGCGCGaCAAGUA- -5'
23608 3' -54.1 NC_005261.1 + 69218 0.66 0.922697
Target:  5'- cUC-CGGgaGCUGUGCGCGCUGgggCGg -3'
miRNA:   3'- -AGcGUCagCGACAUGCGCGACaa-GUa -5'
23608 3' -54.1 NC_005261.1 + 86118 0.66 0.922697
Target:  5'- gUCGgAGcgCGCUGUACGaCGCguaGUUCc- -3'
miRNA:   3'- -AGCgUCa-GCGACAUGC-GCGa--CAAGua -5'
23608 3' -54.1 NC_005261.1 + 69360 0.67 0.910834
Target:  5'- aCGCGGcCGCgc-GCGCGCUGgaccUCGa -3'
miRNA:   3'- aGCGUCaGCGacaUGCGCGACa---AGUa -5'
23608 3' -54.1 NC_005261.1 + 61215 0.67 0.904524
Target:  5'- cCGCGGUUGCgau-CGCGCUcggcGUUCGg -3'
miRNA:   3'- aGCGUCAGCGacauGCGCGA----CAAGUa -5'
23608 3' -54.1 NC_005261.1 + 59638 0.67 0.903879
Target:  5'- cUCGCGGUCGCUGUccucgagGCGgGCgacugCGg -3'
miRNA:   3'- -AGCGUCAGCGACA-------UGCgCGacaa-GUa -5'
23608 3' -54.1 NC_005261.1 + 81989 0.67 0.897965
Target:  5'- gCGCGaa-GUUGUGCGCGCUGccgUCGa -3'
miRNA:   3'- aGCGUcagCGACAUGCGCGACa--AGUa -5'
23608 3' -54.1 NC_005261.1 + 84802 0.67 0.897965
Target:  5'- aCGCGGUUGUUGccCGCGCUGccgUUGUa -3'
miRNA:   3'- aGCGUCAGCGACauGCGCGACa--AGUA- -5'
23608 3' -54.1 NC_005261.1 + 101293 0.67 0.897965
Target:  5'- cCGCGGUCGUcGaUGCGCGCcGUUa-- -3'
miRNA:   3'- aGCGUCAGCGaC-AUGCGCGaCAAgua -5'
23608 3' -54.1 NC_005261.1 + 73720 0.67 0.897965
Target:  5'- cCGCGGUCgGC-GUGCGCGCUuGcgCGc -3'
miRNA:   3'- aGCGUCAG-CGaCAUGCGCGA-CaaGUa -5'
23608 3' -54.1 NC_005261.1 + 105375 0.68 0.853607
Target:  5'- -gGCGGcgCGCgcggGUGCGCGCUGacCAc -3'
miRNA:   3'- agCGUCa-GCGa---CAUGCGCGACaaGUa -5'
23608 3' -54.1 NC_005261.1 + 76901 0.69 0.828467
Target:  5'- uUCGCccacgucgCGCUGUGCGUGCUGggCc- -3'
miRNA:   3'- -AGCGuca-----GCGACAUGCGCGACaaGua -5'
23608 3' -54.1 NC_005261.1 + 69533 0.7 0.773306
Target:  5'- gCGCGGgCGCUGgcgcGCGCGCUGg---- -3'
miRNA:   3'- aGCGUCaGCGACa---UGCGCGACaagua -5'
23608 3' -54.1 NC_005261.1 + 20792 0.7 0.763587
Target:  5'- gCGCAcGUCGCUGccccgACGCGCcugGUUUAc -3'
miRNA:   3'- aGCGU-CAGCGACa----UGCGCGa--CAAGUa -5'
23608 3' -54.1 NC_005261.1 + 29671 0.72 0.6507
Target:  5'- gCGCAGaacgCGCUGUGgGCGCUGccgCAc -3'
miRNA:   3'- aGCGUCa---GCGACAUgCGCGACaa-GUa -5'
23608 3' -54.1 NC_005261.1 + 86155 1.07 0.004632
Target:  5'- gUCGCAGUCGCUGUACGCGCUGUUCAUg -3'
miRNA:   3'- -AGCGUCAGCGACAUGCGCGACAAGUA- -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.