miRNA display CGI


Results 1 - 13 of 13 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
31626 3' -62.9 NC_006879.1 + 22053 0.66 0.242039
Target:  5'- aCAcGGCGGUaGAgGgGCCc-UCGCCGGCc -3'
miRNA:   3'- -GUuCCGCCA-CU-CgCGGucGGCGGCCG- -5'
31626 3' -62.9 NC_006879.1 + 24663 0.66 0.235896
Target:  5'- gGGGGCGucGGGgGCCggggcuucGGCUGUCGGCu -3'
miRNA:   3'- gUUCCGCcaCUCgCGG--------UCGGCGGCCG- -5'
31626 3' -62.9 NC_006879.1 + 17244 0.66 0.229883
Target:  5'- -cGGGCGcGUGGGgGgCGGCgGUggCGGCg -3'
miRNA:   3'- guUCCGC-CACUCgCgGUCGgCG--GCCG- -5'
31626 3' -62.9 NC_006879.1 + 10259 0.66 0.227515
Target:  5'- --uGGUGGUGGGCGUCugaggucgcaucuGCCGCa-GCa -3'
miRNA:   3'- guuCCGCCACUCGCGGu------------CGGCGgcCG- -5'
31626 3' -62.9 NC_006879.1 + 5881 0.67 0.208755
Target:  5'- aCAcGGCGGUgcgcucgucgggcagGAugcgcacGCGCCAGCCG-CGGUu -3'
miRNA:   3'- -GUuCCGCCA---------------CU-------CGCGGUCGGCgGCCG- -5'
31626 3' -62.9 NC_006879.1 + 4755 0.67 0.201208
Target:  5'- gUAGGGCaccagccGGUGGGCGUCcagGGCCGCgaGGg -3'
miRNA:   3'- -GUUCCG-------CCACUCGCGG---UCGGCGg-CCg -5'
31626 3' -62.9 NC_006879.1 + 14901 0.67 0.186327
Target:  5'- gGAGGCGGcGcuAGCGaCCGGuCCGggguuguaCCGGCg -3'
miRNA:   3'- gUUCCGCCaC--UCGC-GGUC-GGC--------GGCCG- -5'
31626 3' -62.9 NC_006879.1 + 11390 0.68 0.176637
Target:  5'- ---cGCGGUG-GCcCCGuCCGCCGGCc -3'
miRNA:   3'- guucCGCCACuCGcGGUcGGCGGCCG- -5'
31626 3' -62.9 NC_006879.1 + 14995 0.69 0.149803
Target:  5'- --cGGCGGUGGG-GCgacgucuccgaugCAGCCGCCucuugcGGCg -3'
miRNA:   3'- guuCCGCCACUCgCG-------------GUCGGCGG------CCG- -5'
31626 3' -62.9 NC_006879.1 + 9194 0.71 0.10758
Target:  5'- uGAGGaCGGUGGGcCGCUGGggggcguCCGCgGGCa -3'
miRNA:   3'- gUUCC-GCCACUC-GCGGUC-------GGCGgCCG- -5'
31626 3' -62.9 NC_006879.1 + 9736 0.71 0.104909
Target:  5'- gGAGGCGGUucucgguacaGGG-GCCAGCCGacugUGGCg -3'
miRNA:   3'- gUUCCGCCA----------CUCgCGGUCGGCg---GCCG- -5'
31626 3' -62.9 NC_006879.1 + 13120 0.74 0.054603
Target:  5'- gAAGaGCGGUGAGaGUCAcGCCGgCGGCg -3'
miRNA:   3'- gUUC-CGCCACUCgCGGU-CGGCgGCCG- -5'
31626 3' -62.9 NC_006879.1 + 11077 1.11 0.000063
Target:  5'- aCAAGGCGGUGAGCGCCAGCCGCCGGCg -3'
miRNA:   3'- -GUUCCGCCACUCGCGGUCGGCGGCCG- -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.