miRNA display CGI


Results 1 - 20 of 25 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
27954 5' -58.6 NC_005886.2 + 20546 0.66 0.512798
Target:  5'- --cGAAUGCCGcGCCGCU---AUCGCGa -3'
miRNA:   3'- cgcCUUGCGGC-CGGCGAacgUAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 6404 0.66 0.505552
Target:  5'- cCGGGuuauagcugucaaAUGCCGuaGCCGCcauuggcaugccgucUUGCAUCGCGu -3'
miRNA:   3'- cGCCU-------------UGCGGC--CGGCG---------------AACGUAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 27087 0.66 0.50246
Target:  5'- cGCGcGAUGCgGGCCGUUUGCcauUUGaCAu -3'
miRNA:   3'- -CGCcUUGCGgCCGGCGAACGu--AGC-GU- -5'
27954 5' -58.6 NC_005886.2 + 7268 0.66 0.482065
Target:  5'- aCGGGcaGCuGCCGGCCGUcgUGuUGUCGUAc -3'
miRNA:   3'- cGCCU--UG-CGGCCGGCGa-AC-GUAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 32670 0.66 0.462078
Target:  5'- gGCGG--UGCa-GCCGgUUGCGUCGCu -3'
miRNA:   3'- -CGCCuuGCGgcCGGCgAACGUAGCGu -5'
27954 5' -58.6 NC_005886.2 + 24016 0.66 0.462078
Target:  5'- cGCGGAuCGUCGcGCCaa-UGCAUCGUu -3'
miRNA:   3'- -CGCCUuGCGGC-CGGcgaACGUAGCGu -5'
27954 5' -58.6 NC_005886.2 + 32435 0.67 0.442537
Target:  5'- cGCGcGuguUGUCGGCCGCUU-CuUCGCAa -3'
miRNA:   3'- -CGC-Cuu-GCGGCCGGCGAAcGuAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 38595 0.67 0.442537
Target:  5'- uUGGuguUGCCGGCCGCgccGCAcUUGCu -3'
miRNA:   3'- cGCCuu-GCGGCCGGCGaa-CGU-AGCGu -5'
27954 5' -58.6 NC_005886.2 + 35600 0.67 0.442537
Target:  5'- gGCGGGAUaCCGGCC-CaUGCGUC-CAa -3'
miRNA:   3'- -CGCCUUGcGGCCGGcGaACGUAGcGU- -5'
27954 5' -58.6 NC_005886.2 + 41968 0.67 0.432943
Target:  5'- cGCuGAACGaaguguUCGcGCCGCUcgGCAUCGUAg -3'
miRNA:   3'- -CGcCUUGC------GGC-CGGCGAa-CGUAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 35525 0.67 0.414124
Target:  5'- uCGGGcaACaGUCGGCCGUUcaUGCugAUCGCAa -3'
miRNA:   3'- cGCCU--UG-CGGCCGGCGA--ACG--UAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 18247 0.68 0.395817
Target:  5'- cGCGGcGCGacgaUGGCUGaacagGCAUCGCGg -3'
miRNA:   3'- -CGCCuUGCg---GCCGGCgaa--CGUAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 17948 0.68 0.369355
Target:  5'- -aGGAACGCCGGCUuaucccggacgGCUUGUccUUGCc -3'
miRNA:   3'- cgCCUUGCGGCCGG-----------CGAACGu-AGCGu -5'
27954 5' -58.6 NC_005886.2 + 21287 0.69 0.344131
Target:  5'- uGCGGuACGCuCGGCCGCguagacGCGUUcCAu -3'
miRNA:   3'- -CGCCuUGCG-GCCGGCGaa----CGUAGcGU- -5'
27954 5' -58.6 NC_005886.2 + 31109 0.69 0.334394
Target:  5'- uCGGAAgcuUGCCGGCCGCaaaggguucaaGCGUgCGCAa -3'
miRNA:   3'- cGCCUU---GCGGCCGGCGaa---------CGUA-GCGU- -5'
27954 5' -58.6 NC_005886.2 + 41959 0.69 0.328015
Target:  5'- cGCGGGggcgGCGuCCGG-CGCagGCAUUGCGa -3'
miRNA:   3'- -CGCCU----UGC-GGCCgGCGaaCGUAGCGU- -5'
27954 5' -58.6 NC_005886.2 + 9447 0.69 0.312465
Target:  5'- uGCGGcgucgacguGGCccgaaucgcucgGCCGGCCGCUUGCucuUUGCc -3'
miRNA:   3'- -CGCC---------UUG------------CGGCCGGCGAACGu--AGCGu -5'
27954 5' -58.6 NC_005886.2 + 29311 0.7 0.29748
Target:  5'- cGCGacaauAUGCCGGCCGCU-GCAaaCGCGc -3'
miRNA:   3'- -CGCcu---UGCGGCCGGCGAaCGUa-GCGU- -5'
27954 5' -58.6 NC_005886.2 + 16241 0.7 0.276058
Target:  5'- aCGGGcgcuucaacaucGCGCCGGCCG-UUGCGuUCGUg -3'
miRNA:   3'- cGCCU------------UGCGGCCGGCgAACGU-AGCGu -5'
27954 5' -58.6 NC_005886.2 + 34232 0.71 0.249437
Target:  5'- gGCGGAACuuGCCGGCCaGUggacCAUUGCAc -3'
miRNA:   3'- -CGCCUUG--CGGCCGG-CGaac-GUAGCGU- -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.