miRNA display CGI


Results 1 - 20 of 69 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
24865 3' -65.5 NC_005284.1 + 44446 0.71 0.103761
Target:  5'- cGCGUgaUCUCGACGCCGCuUCGCACg-- -3'
miRNA:   3'- aCGCG--GGAGCUGCGGCG-GGCGUGggu -5'
24865 3' -65.5 NC_005284.1 + 21626 0.68 0.195261
Target:  5'- cGCGCCgcgCUCGACGCCgagcagcgugcgaucGCCgCGCACg-- -3'
miRNA:   3'- aCGCGG---GAGCUGCGG---------------CGG-GCGUGggu -5'
24865 3' -65.5 NC_005284.1 + 33805 0.67 0.198223
Target:  5'- cGCGCCgUUCGuaaUCGCCCGCACgCAg -3'
miRNA:   3'- aCGCGG-GAGCugcGGCGGGCGUGgGU- -5'
24865 3' -65.5 NC_005284.1 + 45546 0.67 0.208383
Target:  5'- cGCGCUCUaugccgccgcgUGGCGCguCGCCCGCGCaCUc -3'
miRNA:   3'- aCGCGGGA-----------GCUGCG--GCGGGCGUG-GGu -5'
24865 3' -65.5 NC_005284.1 + 38256 0.67 0.218988
Target:  5'- -uUGUCCUgG-UGCCGCCagCGCGCCCGg -3'
miRNA:   3'- acGCGGGAgCuGCGGCGG--GCGUGGGU- -5'
24865 3' -65.5 NC_005284.1 + 35648 0.66 0.241583
Target:  5'- cUGCGUCagguucaCGAUGCCGUUCGCGCgCGg -3'
miRNA:   3'- -ACGCGGga-----GCUGCGGCGGGCGUGgGU- -5'
24865 3' -65.5 NC_005284.1 + 45798 0.66 0.246928
Target:  5'- gGCGUCggcaugCUCGGCGaagguguCCGCaCCGCACUCGa -3'
miRNA:   3'- aCGCGG------GAGCUGC-------GGCG-GGCGUGGGU- -5'
24865 3' -65.5 NC_005284.1 + 41048 0.66 0.246928
Target:  5'- cGCGCCgacguuuCUCGcgggGCGCCGCgUGCcucCCCAg -3'
miRNA:   3'- aCGCGG-------GAGC----UGCGGCGgGCGu--GGGU- -5'
24865 3' -65.5 NC_005284.1 + 31418 0.66 0.253592
Target:  5'- uUGCGCCaguUCGcgggcgacguGCGCCGCUgcggCGCGCCgGg -3'
miRNA:   3'- -ACGCGGg--AGC----------UGCGGCGG----GCGUGGgU- -5'
24865 3' -65.5 NC_005284.1 + 30929 0.68 0.193307
Target:  5'- gGCGCCgUgGcgcuuuCGCCGCCgGCgaucACCCAa -3'
miRNA:   3'- aCGCGGgAgCu-----GCGGCGGgCG----UGGGU- -5'
24865 3' -65.5 NC_005284.1 + 467 0.68 0.179196
Target:  5'- aGCGCCUggUCGGCGCaaaGCCgaaaaCACCCGa -3'
miRNA:   3'- aCGCGGG--AGCUGCGg--CGGgc---GUGGGU- -5'
24865 3' -65.5 NC_005284.1 + 33475 0.68 0.174699
Target:  5'- cGCGCCgUCGGC-CgGCgCUGCugCCGa -3'
miRNA:   3'- aCGCGGgAGCUGcGgCG-GGCGugGGU- -5'
24865 3' -65.5 NC_005284.1 + 12799 0.71 0.11175
Target:  5'- gGCGCggagucguucuaCUgGACGCCGCCgcuuCGCGCCCGc -3'
miRNA:   3'- aCGCGg-----------GAgCUGCGGCGG----GCGUGGGU- -5'
24865 3' -65.5 NC_005284.1 + 8715 0.71 0.115347
Target:  5'- cGCGCgCUCGACGCgGCgCGCAguucgaUCCGc -3'
miRNA:   3'- aCGCGgGAGCUGCGgCGgGCGU------GGGU- -5'
24865 3' -65.5 NC_005284.1 + 24738 0.7 0.135004
Target:  5'- gUGCGUCUUCGGC-CCGCUa-CACCCGa -3'
miRNA:   3'- -ACGCGGGAGCUGcGGCGGgcGUGGGU- -5'
24865 3' -65.5 NC_005284.1 + 9903 0.69 0.142215
Target:  5'- aGCGCgCCgaaGCGUCGCUCGCGCUCGc -3'
miRNA:   3'- aCGCG-GGagcUGCGGCGGGCGUGGGU- -5'
24865 3' -65.5 NC_005284.1 + 14632 0.69 0.145952
Target:  5'- cGCGCuaCCUCGACGCCgugaauuuuccgGCCgGCAaUCCGa -3'
miRNA:   3'- aCGCG--GGAGCUGCGG------------CGGgCGU-GGGU- -5'
24865 3' -65.5 NC_005284.1 + 21905 0.69 0.166006
Target:  5'- cGCGUuuUCGGCGUCGCCgGCGacgaUCAg -3'
miRNA:   3'- aCGCGggAGCUGCGGCGGgCGUg---GGU- -5'
24865 3' -65.5 NC_005284.1 + 7715 0.69 0.166006
Target:  5'- gUGCGCCgaagCUCGugcCGCCGCCgGCGgcguaacucCCCGa -3'
miRNA:   3'- -ACGCGG----GAGCu--GCGGCGGgCGU---------GGGU- -5'
24865 3' -65.5 NC_005284.1 + 34238 0.69 0.167713
Target:  5'- cUGCGCCgUCGAUGUccugcggcguaacugCGCgCGCAgCCAg -3'
miRNA:   3'- -ACGCGGgAGCUGCG---------------GCGgGCGUgGGU- -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.