miRNA display CGI


Results 1 - 19 of 19 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
29318 5' -55.9 NC_006150.1 + 47977 0.66 0.959555
Target:  5'- gGCAGCaaUGUcugguccuugCCGCGAGGUgUGAGCCGg -3'
miRNA:   3'- aCGUCGc-GCA----------GGUGUUUCA-GCUCGGC- -5'
29318 5' -55.9 NC_006150.1 + 168811 0.66 0.955915
Target:  5'- cUGCAGCGaaaCCACcGGGacggugugCGAGCCGu -3'
miRNA:   3'- -ACGUCGCgcaGGUGuUUCa-------GCUCGGC- -5'
29318 5' -55.9 NC_006150.1 + 202868 0.66 0.955915
Target:  5'- gGCAGCGCGggcaCCugGAAcgCGGGCg- -3'
miRNA:   3'- aCGUCGCGCa---GGugUUUcaGCUCGgc -5'
29318 5' -55.9 NC_006150.1 + 191637 0.66 0.952059
Target:  5'- gGCAGUGUagaCCACAGcAG-CGGGCCa -3'
miRNA:   3'- aCGUCGCGca-GGUGUU-UCaGCUCGGc -5'
29318 5' -55.9 NC_006150.1 + 88437 0.66 0.952059
Target:  5'- nGCGGUuccgGC-UCCACGucGUCcGGGCCGc -3'
miRNA:   3'- aCGUCG----CGcAGGUGUuuCAG-CUCGGC- -5'
29318 5' -55.9 NC_006150.1 + 217273 0.66 0.947982
Target:  5'- gGgAGCGCGUUgACAuuccgcuuGUCGAGgCGu -3'
miRNA:   3'- aCgUCGCGCAGgUGUuu------CAGCUCgGC- -5'
29318 5' -55.9 NC_006150.1 + 53447 0.66 0.945429
Target:  5'- uUGCGGCGCGacugaguagguaaaUCACGAGGaCGAGgCGg -3'
miRNA:   3'- -ACGUCGCGCa-------------GGUGUUUCaGCUCgGC- -5'
29318 5' -55.9 NC_006150.1 + 23959 0.66 0.939157
Target:  5'- aGCAGaGCGUCCAaaaugagcugGAAGUCuGGCUGg -3'
miRNA:   3'- aCGUCgCGCAGGUg---------UUUCAGcUCGGC- -5'
29318 5' -55.9 NC_006150.1 + 111445 0.66 0.939157
Target:  5'- uUGCuGCGCGUCguCAuGGUggaCGAuGCCGc -3'
miRNA:   3'- -ACGuCGCGCAGguGUuUCA---GCU-CGGC- -5'
29318 5' -55.9 NC_006150.1 + 125405 0.67 0.929424
Target:  5'- gGCGGCGCG-CCACGuu-UCGcgucuucuugcGGCCGu -3'
miRNA:   3'- aCGUCGCGCaGGUGUuucAGC-----------UCGGC- -5'
29318 5' -55.9 NC_006150.1 + 129903 0.67 0.924214
Target:  5'- aGCAG-GCagGUCCGCGacGAGgCGGGCCa -3'
miRNA:   3'- aCGUCgCG--CAGGUGU--UUCaGCUCGGc -5'
29318 5' -55.9 NC_006150.1 + 122400 0.67 0.924214
Target:  5'- aGCGGCGCGUCaC-CGuGGcUCGGGCa- -3'
miRNA:   3'- aCGUCGCGCAG-GuGUuUC-AGCUCGgc -5'
29318 5' -55.9 NC_006150.1 + 88408 0.67 0.924214
Target:  5'- cGguGCGCGgacggCCGCGcuGGGUCu-GCCGc -3'
miRNA:   3'- aCguCGCGCa----GGUGU--UUCAGcuCGGC- -5'
29318 5' -55.9 NC_006150.1 + 132712 0.68 0.888189
Target:  5'- aGCAGCuCGUCCugGGcca-GAGCCGc -3'
miRNA:   3'- aCGUCGcGCAGGugUUucagCUCGGC- -5'
29318 5' -55.9 NC_006150.1 + 91301 0.68 0.874419
Target:  5'- gUGCAGgGCGUUCAgGAucAGUUcAGCCa -3'
miRNA:   3'- -ACGUCgCGCAGGUgUU--UCAGcUCGGc -5'
29318 5' -55.9 NC_006150.1 + 82853 0.69 0.852221
Target:  5'- gGCAGC-CGUCCACAAAaaauaacacGUCGucCCGc -3'
miRNA:   3'- aCGUCGcGCAGGUGUUU---------CAGCucGGC- -5'
29318 5' -55.9 NC_006150.1 + 991 0.7 0.794062
Target:  5'- cGCAGCgaGCG-CCACAcg--CGGGCCGg -3'
miRNA:   3'- aCGUCG--CGCaGGUGUuucaGCUCGGC- -5'
29318 5' -55.9 NC_006150.1 + 69333 0.71 0.757582
Target:  5'- gGCAGCGCGagCACaAGAGUcCGuGCCc -3'
miRNA:   3'- aCGUCGCGCagGUG-UUUCA-GCuCGGc -5'
29318 5' -55.9 NC_006150.1 + 118003 1.08 0.004901
Target:  5'- uUGCAGCGCGUCCACAAAGUCGAGCCGc -3'
miRNA:   3'- -ACGUCGCGCAGGUGUUUCAGCUCGGC- -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.