miRNA display CGI


Results 1 - 20 of 30 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
27560 5' -54 NC_005882.1 + 3620 1.12 0.000631
Target:  5'- gACGCGAUCGUGCCGAAACGGUGUCGCu -3'
miRNA:   3'- -UGCGCUAGCACGGCUUUGCCACAGCG- -5'
27560 5' -54 NC_005882.1 + 17945 0.78 0.159379
Target:  5'- -aGCG-UCGUGCCGAGGCGG--UCGCc -3'
miRNA:   3'- ugCGCuAGCACGGCUUUGCCacAGCG- -5'
27560 5' -54 NC_005882.1 + 13433 0.75 0.239899
Target:  5'- aGCGCGAUCGcGUCGAgcuuggcuucgauGACGGUcugGUUGCg -3'
miRNA:   3'- -UGCGCUAGCaCGGCU-------------UUGCCA---CAGCG- -5'
27560 5' -54 NC_005882.1 + 4786 0.75 0.243117
Target:  5'- gACGCGAUCGUcGCCGAgcuuaccggcccgcgAGCGG-GUCa- -3'
miRNA:   3'- -UGCGCUAGCA-CGGCU---------------UUGCCaCAGcg -5'
27560 5' -54 NC_005882.1 + 23263 0.74 0.281646
Target:  5'- uGCGCGAgcgUCGUGCCGAu-CGGcgcaucgaUGUaCGCg -3'
miRNA:   3'- -UGCGCU---AGCACGGCUuuGCC--------ACA-GCG- -5'
27560 5' -54 NC_005882.1 + 6778 0.73 0.304208
Target:  5'- aGCGCGAUCGccuUCGAGGCGGaGUCGg -3'
miRNA:   3'- -UGCGCUAGCac-GGCUUUGCCaCAGCg -5'
27560 5' -54 NC_005882.1 + 28834 0.73 0.328132
Target:  5'- cCGCGAaccccagCGUGCCGAuuacGGCGGUucUCGCg -3'
miRNA:   3'- uGCGCUa------GCACGGCU----UUGCCAc-AGCG- -5'
27560 5' -54 NC_005882.1 + 26777 0.72 0.33641
Target:  5'- cCGCgGAUCG-GCCGGGAUGGgcgGcCGCg -3'
miRNA:   3'- uGCG-CUAGCaCGGCUUUGCCa--CaGCG- -5'
27560 5' -54 NC_005882.1 + 18688 0.72 0.362149
Target:  5'- aGCGCGAUCGgcucGUCGAcagguuagcGGCGGU-UCGCu -3'
miRNA:   3'- -UGCGCUAGCa---CGGCU---------UUGCCAcAGCG- -5'
27560 5' -54 NC_005882.1 + 18123 0.71 0.407999
Target:  5'- -gGCGAUCGUGCCGAGAUcacccGUGUa-- -3'
miRNA:   3'- ugCGCUAGCACGGCUUUGc----CACAgcg -5'
27560 5' -54 NC_005882.1 + 15414 0.7 0.437194
Target:  5'- -gGCGAUCugcuccugcUGCCGGAACGGcacGUUGCg -3'
miRNA:   3'- ugCGCUAGc--------ACGGCUUUGCCa--CAGCG- -5'
27560 5' -54 NC_005882.1 + 20506 0.69 0.542217
Target:  5'- gACGCcgaccgGAUCGcUGCCGGccGCGGUgaacuucucgGUCGCg -3'
miRNA:   3'- -UGCG------CUAGC-ACGGCUu-UGCCA----------CAGCG- -5'
27560 5' -54 NC_005882.1 + 34296 0.68 0.553233
Target:  5'- uAUGCGGUCGaGCCGAuguucgagaAACGGa-UCGCc -3'
miRNA:   3'- -UGCGCUAGCaCGGCU---------UUGCCacAGCG- -5'
27560 5' -54 NC_005882.1 + 5777 0.68 0.564314
Target:  5'- aGCGCGG-CGggGCCGAccugcugcACGGUGUgccaCGCa -3'
miRNA:   3'- -UGCGCUaGCa-CGGCUu-------UGCCACA----GCG- -5'
27560 5' -54 NC_005882.1 + 18991 0.68 0.564315
Target:  5'- cGCGCGAcaaCGcGCCGGcgUGGggcuggGUCGCu -3'
miRNA:   3'- -UGCGCUa--GCaCGGCUuuGCCa-----CAGCG- -5'
27560 5' -54 NC_005882.1 + 22702 0.68 0.575454
Target:  5'- gACGCGGUCuacgacuacgGCagCGGGACGGUGaUCGUg -3'
miRNA:   3'- -UGCGCUAGca--------CG--GCUUUGCCAC-AGCG- -5'
27560 5' -54 NC_005882.1 + 29380 0.68 0.586643
Target:  5'- cCGCGAUCGUcGCCaGcgUGGUGU-GCu -3'
miRNA:   3'- uGCGCUAGCA-CGGcUuuGCCACAgCG- -5'
27560 5' -54 NC_005882.1 + 21999 0.68 0.597872
Target:  5'- uCGCGAUCGUGCUGcgccagcucAACGGc--CGCg -3'
miRNA:   3'- uGCGCUAGCACGGCu--------UUGCCacaGCG- -5'
27560 5' -54 NC_005882.1 + 19913 0.67 0.609131
Target:  5'- cGCGCuucgGAUCGacguucucGCCGuacucGACGGUGUCGg -3'
miRNA:   3'- -UGCG----CUAGCa-------CGGCu----UUGCCACAGCg -5'
27560 5' -54 NC_005882.1 + 34568 0.67 0.631702
Target:  5'- gAUGaGAUCGuUGUCGAGacggcgcucgGCGGUGcCGCg -3'
miRNA:   3'- -UGCgCUAGC-ACGGCUU----------UGCCACaGCG- -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.