miRNA display CGI


Results 1 - 20 of 77 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
28019 3' -53.8 NC_005887.1 + 617 0.68 0.612655
Target:  5'- uUGCUGCaaagaucgaAGCcGCGAUGAaAGcGCGCg -3'
miRNA:   3'- cGCGACGg--------UCGuCGCUACU-UCaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 1677 0.68 0.564058
Target:  5'- cGCGC-GCCAGguGCaggauggugcggccGGUGAucgGCGCg -3'
miRNA:   3'- -CGCGaCGGUCguCG--------------CUACUucaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 2187 0.66 0.714386
Target:  5'- ----cGCCGGCcGCGGUGAucGGgcaGCGCa -3'
miRNA:   3'- cgcgaCGGUCGuCGCUACU--UCa--UGCG- -5'
28019 3' -53.8 NC_005887.1 + 2537 0.71 0.419177
Target:  5'- cGCGCUuuauCCAGCAGUGc-GAAGUgacgACGCg -3'
miRNA:   3'- -CGCGAc---GGUCGUCGCuaCUUCA----UGCG- -5'
28019 3' -53.8 NC_005887.1 + 2572 0.72 0.372122
Target:  5'- cCGCaugGCCgugAGCGGCGAgc-GGUACGCg -3'
miRNA:   3'- cGCGa--CGG---UCGUCGCUacuUCAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 3185 0.67 0.65817
Target:  5'- gGCaGCUGCCgcgcccGGaCAGCGA-GAAGggcCGCg -3'
miRNA:   3'- -CG-CGACGG------UC-GUCGCUaCUUCau-GCG- -5'
28019 3' -53.8 NC_005887.1 + 4675 0.7 0.459314
Target:  5'- cCGCUGCgCAGaCGGCGAgggucUGAuggGCGCg -3'
miRNA:   3'- cGCGACG-GUC-GUCGCU-----ACUucaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 5919 0.69 0.52308
Target:  5'- aGgGCaagaaGCCGGCcGCGcgGAaggcGGUGCGCa -3'
miRNA:   3'- -CgCGa----CGGUCGuCGCuaCU----UCAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 6049 0.67 0.67404
Target:  5'- gGUGCUGgUGGCAGCGgcgcggcacucaccaAcGAAGaUGCGCg -3'
miRNA:   3'- -CGCGACgGUCGUCGC---------------UaCUUC-AUGCG- -5'
28019 3' -53.8 NC_005887.1 + 6428 0.7 0.459314
Target:  5'- cGUGUgGCCGGaCGGCcgcgccgaGAUcGAAGUGCGCg -3'
miRNA:   3'- -CGCGaCGGUC-GUCG--------CUA-CUUCAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 6491 0.68 0.589962
Target:  5'- gGUGuCUGCCgAGCgcaauccgcaGGCGAUGAucUACGCc -3'
miRNA:   3'- -CGC-GACGG-UCG----------UCGCUACUucAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 8485 0.68 0.605836
Target:  5'- aGCGCUGUCGGCuGCcgcaggcucGUACGCc -3'
miRNA:   3'- -CGCGACGGUCGuCGcuacuu---CAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 9074 0.68 0.556231
Target:  5'- aGUGC-GCCGGCugcGGCGGgacGAAGUuuCGCg -3'
miRNA:   3'- -CGCGaCGGUCG---UCGCUa--CUUCAu-GCG- -5'
28019 3' -53.8 NC_005887.1 + 11386 0.67 0.669513
Target:  5'- aGCGCaGCCGG-AGCGcUGgcGgccgGCGCc -3'
miRNA:   3'- -CGCGaCGGUCgUCGCuACuuCa---UGCG- -5'
28019 3' -53.8 NC_005887.1 + 11791 0.75 0.240419
Target:  5'- uCGCUGCuCGGCGGCGucgGuucGUACGCu -3'
miRNA:   3'- cGCGACG-GUCGUCGCua-Cuu-CAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 12284 0.7 0.449085
Target:  5'- uGCGCcaGCuCGGCaaGGUGAUGGAGcugGCGCu -3'
miRNA:   3'- -CGCGa-CG-GUCG--UCGCUACUUCa--UGCG- -5'
28019 3' -53.8 NC_005887.1 + 12347 0.71 0.429013
Target:  5'- uCGCUcGCCGGCcaGGCGGUGAcGUG-GCa -3'
miRNA:   3'- cGCGA-CGGUCG--UCGCUACUuCAUgCG- -5'
28019 3' -53.8 NC_005887.1 + 12434 0.68 0.556231
Target:  5'- uGCGCgagGCCcGCGGCaugugGGAGUGgGCc -3'
miRNA:   3'- -CGCGa--CGGuCGUCGcua--CUUCAUgCG- -5'
28019 3' -53.8 NC_005887.1 + 12490 0.67 0.65817
Target:  5'- cGCGCUGaucgauUCAGCGGCGcUGGAuc-CGCa -3'
miRNA:   3'- -CGCGAC------GGUCGUCGCuACUUcauGCG- -5'
28019 3' -53.8 NC_005887.1 + 13560 0.72 0.372122
Target:  5'- uGCGCUGCCgcccgAGCAggccgacgacGCGAaGGAGgcCGCg -3'
miRNA:   3'- -CGCGACGG-----UCGU----------CGCUaCUUCauGCG- -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.