miRNA display CGI


Results 1 - 20 of 23 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
26555 5' -55 NC_005357.1 + 39417 0.65 0.676159
Target:  5'- gACGAGCAGcuaUGaCCCGCcGcgccuUCGUCCCc -3'
miRNA:   3'- gUGUUUGUCa--AC-GGGCGaC-----AGCGGGG- -5'
26555 5' -55 NC_005357.1 + 28889 0.66 0.66496
Target:  5'- gCugGcgUAGUUGCUgGCcGUCGCCgaCCa -3'
miRNA:   3'- -GugUuuGUCAACGGgCGaCAGCGG--GG- -5'
26555 5' -55 NC_005357.1 + 28077 0.66 0.66496
Target:  5'- aGCGGGCAGgUGgCCGCggcGUCGUauUCCg -3'
miRNA:   3'- gUGUUUGUCaACgGGCGa--CAGCG--GGG- -5'
26555 5' -55 NC_005357.1 + 15417 0.66 0.619954
Target:  5'- uCACGGuACAuauccGCgCCGCUGUaGCCCCa -3'
miRNA:   3'- -GUGUU-UGUcaa--CG-GGCGACAgCGGGG- -5'
26555 5' -55 NC_005357.1 + 27005 0.67 0.608705
Target:  5'- aACAAGCuguGGUUGCgCGUgcaucgGUCGUCCg -3'
miRNA:   3'- gUGUUUG---UCAACGgGCGa-----CAGCGGGg -5'
26555 5' -55 NC_005357.1 + 35229 0.67 0.597476
Target:  5'- aCGCAguccGAUGGcaaGCCCaGC-GUCGCCCCc -3'
miRNA:   3'- -GUGU----UUGUCaa-CGGG-CGaCAGCGGGG- -5'
26555 5' -55 NC_005357.1 + 163 0.67 0.597476
Target:  5'- cCGCAGGCGGaUGCgccCCGgUGUCGCUg- -3'
miRNA:   3'- -GUGUUUGUCaACG---GGCgACAGCGGgg -5'
26555 5' -55 NC_005357.1 + 3660 0.67 0.586278
Target:  5'- cCACAAGCAaccGgacGCCUGCacaaCGCCCCa -3'
miRNA:   3'- -GUGUUUGU---Caa-CGGGCGaca-GCGGGG- -5'
26555 5' -55 NC_005357.1 + 13167 0.67 0.586278
Target:  5'- -uCGGcCAGUgucgGCCgCGCUGggCGCCCUu -3'
miRNA:   3'- guGUUuGUCAa---CGG-GCGACa-GCGGGG- -5'
26555 5' -55 NC_005357.1 + 17834 0.67 0.584043
Target:  5'- -uCGGGCGGguugaUGCCCGCcaccguggccucGUCGCCCa -3'
miRNA:   3'- guGUUUGUCa----ACGGGCGa-----------CAGCGGGg -5'
26555 5' -55 NC_005357.1 + 9517 0.68 0.552962
Target:  5'- gGCGAACAGUgGCaucaUGCUG-CGgCCCu -3'
miRNA:   3'- gUGUUUGUCAaCGg---GCGACaGCgGGG- -5'
26555 5' -55 NC_005357.1 + 41585 0.68 0.546362
Target:  5'- aUACAGgccACGGUcgGCUCGCUGUCucugcgcgcgcucaaGCCCa -3'
miRNA:   3'- -GUGUU---UGUCAa-CGGGCGACAG---------------CGGGg -5'
26555 5' -55 NC_005357.1 + 16788 0.68 0.541977
Target:  5'- gGCGAuggucgcCAGUUGCCaGUUgGUCGCgCCCa -3'
miRNA:   3'- gUGUUu------GUCAACGGgCGA-CAGCG-GGG- -5'
26555 5' -55 NC_005357.1 + 34120 0.68 0.520234
Target:  5'- -cCGAGCAGcgcGCaCCGCUGgcugcacUGCCCCg -3'
miRNA:   3'- guGUUUGUCaa-CG-GGCGACa------GCGGGG- -5'
26555 5' -55 NC_005357.1 + 18331 0.68 0.498842
Target:  5'- gCGCAuguAGCGGggUGCCCGUgccccgcgcgGUCGCCgCu -3'
miRNA:   3'- -GUGU---UUGUCa-ACGGGCGa---------CAGCGGgG- -5'
26555 5' -55 NC_005357.1 + 30884 0.69 0.488293
Target:  5'- gGCGGGCAGUccuaucaggaUGCCCGCUcgcaggGCCUCa -3'
miRNA:   3'- gUGUUUGUCA----------ACGGGCGAcag---CGGGG- -5'
26555 5' -55 NC_005357.1 + 31463 0.69 0.457304
Target:  5'- aACAGguggccGCAGUgucCCCgGCUGUCGCCgCg -3'
miRNA:   3'- gUGUU------UGUCAac-GGG-CGACAGCGGgG- -5'
26555 5' -55 NC_005357.1 + 17418 0.71 0.362379
Target:  5'- -uCGGACGGcaaCCCGCUGUCgucgGCCCCc -3'
miRNA:   3'- guGUUUGUCaacGGGCGACAG----CGGGG- -5'
26555 5' -55 NC_005357.1 + 32699 0.71 0.353668
Target:  5'- cCACGAGCAGUUcGCCCGCg---GCUUCg -3'
miRNA:   3'- -GUGUUUGUCAA-CGGGCGacagCGGGG- -5'
26555 5' -55 NC_005357.1 + 11135 0.72 0.296895
Target:  5'- uGCGAGCAGUucgGCCUGCUGcugggcCGCCUg -3'
miRNA:   3'- gUGUUUGUCAa--CGGGCGACa-----GCGGGg -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.