miRNA display CGI


Results 1 - 20 of 22 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
1475 3' -57.3 NC_001335.1 + 11909 0.66 0.598115
Target:  5'- gACGGUGaggUCggcguuggaGCCGGuGCCgUCCGGGUc -3'
miRNA:   3'- -UGCUACg--AG---------UGGCCuCGGgAGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 26044 0.66 0.587235
Target:  5'- cGCGAUGgugaUCGCUGcGAuCCCUCCGcucuGGCu -3'
miRNA:   3'- -UGCUACg---AGUGGC-CUcGGGAGGU----UCG- -5'
1475 3' -57.3 NC_001335.1 + 12301 0.66 0.587235
Target:  5'- -gGAcGC-CACCGaAGCCUgaUCCAGGCu -3'
miRNA:   3'- ugCUaCGaGUGGCcUCGGG--AGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 12547 0.66 0.587235
Target:  5'- uGCGcgGUUU-CCGGGGCaCCUUCcAGCc -3'
miRNA:   3'- -UGCuaCGAGuGGCCUCG-GGAGGuUCG- -5'
1475 3' -57.3 NC_001335.1 + 10328 0.66 0.576392
Target:  5'- cUGAUGCUCAUcucaCGGGGUg--CCGAGCu -3'
miRNA:   3'- uGCUACGAGUG----GCCUCGggaGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 31876 0.66 0.576392
Target:  5'- cCGGcugGCUgACCGGGGCUUgccgCgCAAGCa -3'
miRNA:   3'- uGCUa--CGAgUGGCCUCGGGa---G-GUUCG- -5'
1475 3' -57.3 NC_001335.1 + 12850 0.66 0.562365
Target:  5'- -aGGUGUacgCACCgucggucuccgagaGGuAGCCCUCCGGGUu -3'
miRNA:   3'- ugCUACGa--GUGG--------------CC-UCGGGAGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 32875 0.66 0.554851
Target:  5'- cGCGGUcucagGCUCaggaGCCGGGGCCggCuCGGGCu -3'
miRNA:   3'- -UGCUA-----CGAG----UGGCCUCGGgaG-GUUCG- -5'
1475 3' -57.3 NC_001335.1 + 20281 0.67 0.512551
Target:  5'- uCGAUGUguUCACCGGGGaCUacacguucCCAGGCg -3'
miRNA:   3'- uGCUACG--AGUGGCCUC-GGga------GGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 5570 0.68 0.471638
Target:  5'- gACGAUGCccagcagUGCCGGGGCggcggugCCGAGCa -3'
miRNA:   3'- -UGCUACGa------GUGGCCUCGgga----GGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 38052 0.68 0.45181
Target:  5'- gACGGUgggGCUCAgCGGAGCCCag-AAGUg -3'
miRNA:   3'- -UGCUA---CGAGUgGCCUCGGGaggUUCG- -5'
1475 3' -57.3 NC_001335.1 + 25000 0.68 0.440133
Target:  5'- cCGAcUGCcCGCCGGcaugccuacaacGUCCUCCGGGCg -3'
miRNA:   3'- uGCU-ACGaGUGGCCu-----------CGGGAGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 20554 0.68 0.43149
Target:  5'- cCGAUGUUCACCaGGGccgagauGCCCUcguugaugCCAGGUg -3'
miRNA:   3'- uGCUACGAGUGG-CCU-------CGGGA--------GGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 40106 0.69 0.422947
Target:  5'- cGCGAgGCUUGCgGGgauccgGGCUCUCCGGGUc -3'
miRNA:   3'- -UGCUaCGAGUGgCC------UCGGGAGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 12343 0.69 0.413574
Target:  5'- -gGggGCUCcuuCgGGAGCCCUCUccugaugugGAGCa -3'
miRNA:   3'- ugCuaCGAGu--GgCCUCGGGAGG---------UUCG- -5'
1475 3' -57.3 NC_001335.1 + 36880 0.69 0.395219
Target:  5'- -aGAguucGCUCAgCGGAucaaGCCCgacUCCGAGCa -3'
miRNA:   3'- ugCUa---CGAGUgGCCU----CGGG---AGGUUCG- -5'
1475 3' -57.3 NC_001335.1 + 28113 0.69 0.395219
Target:  5'- gGCGGUGUagaCGCCGaucucguuGCCCUCCAGGg -3'
miRNA:   3'- -UGCUACGa--GUGGCcu------CGGGAGGUUCg -5'
1475 3' -57.3 NC_001335.1 + 34965 0.7 0.3517
Target:  5'- aACGA-GUUCACCGGuuGGUCC-CCAAGg -3'
miRNA:   3'- -UGCUaCGAGUGGCC--UCGGGaGGUUCg -5'
1475 3' -57.3 NC_001335.1 + 34051 0.7 0.343414
Target:  5'- cGCGAaGCU-GCCGuAGCCCUCCuuGGCc -3'
miRNA:   3'- -UGCUaCGAgUGGCcUCGGGAGGu-UCG- -5'
1475 3' -57.3 NC_001335.1 + 26957 0.73 0.22411
Target:  5'- gACGGUGUcaUCACCcaGGAGaaccgagacgaCCUCCAGGCg -3'
miRNA:   3'- -UGCUACG--AGUGG--CCUCg----------GGAGGUUCG- -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.