miRNA display CGI


Results 1 - 20 of 29 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
13191 5' -62.4 NC_003401.1 + 11755 0.66 0.610486
Target:  5'- -gGCUUCgCGGugguggucGCGCCcuuGGGGguGGUGa -3'
miRNA:   3'- gaCGGAG-GCU--------UGCGGu--CCCCguCCGC- -5'
13191 5' -62.4 NC_003401.1 + 89672 0.66 0.610486
Target:  5'- -aGCCUCCgccgGAGCGggAGGaGGCAGGgGc -3'
miRNA:   3'- gaCGGAGG----CUUGCggUCC-CCGUCCgC- -5'
13191 5' -62.4 NC_003401.1 + 132675 0.66 0.600588
Target:  5'- -gGCC-CgGGGCGCCucggcGGGGCccGGCGc -3'
miRNA:   3'- gaCGGaGgCUUGCGGu----CCCCGu-CCGC- -5'
13191 5' -62.4 NC_003401.1 + 17017 0.66 0.580864
Target:  5'- -aGCUUuuGGuacacCGCCAgguGGGGCAGGUu -3'
miRNA:   3'- gaCGGAggCUu----GCGGU---CCCCGUCCGc -5'
13191 5' -62.4 NC_003401.1 + 111334 0.66 0.571052
Target:  5'- uCUGCCcacguugCCGAaaagACGCCgAGGaGGCuGGGCu -3'
miRNA:   3'- -GACGGa------GGCU----UGCGG-UCC-CCG-UCCGc -5'
13191 5' -62.4 NC_003401.1 + 119663 0.66 0.571052
Target:  5'- -gGCgUCCGAcgauACGCCcgAGGGGUuugcaaacGGGCu -3'
miRNA:   3'- gaCGgAGGCU----UGCGG--UCCCCG--------UCCGc -5'
13191 5' -62.4 NC_003401.1 + 64223 0.66 0.571052
Target:  5'- -gGCCUCCGuAC-CCGGGcGGUAccGGCa -3'
miRNA:   3'- gaCGGAGGCuUGcGGUCC-CCGU--CCGc -5'
13191 5' -62.4 NC_003401.1 + 15049 0.66 0.561279
Target:  5'- cCUGgcaUCUCUGGcCGCCAggcGGGGCGuGGCGc -3'
miRNA:   3'- -GAC---GGAGGCUuGCGGU---CCCCGU-CCGC- -5'
13191 5' -62.4 NC_003401.1 + 132528 0.66 0.561279
Target:  5'- -cGCgCggcgCgGGGCgGCCGGGGGC-GGCGg -3'
miRNA:   3'- gaCG-Ga---GgCUUG-CGGUCCCCGuCCGC- -5'
13191 5' -62.4 NC_003401.1 + 98993 0.66 0.551553
Target:  5'- -gGCCagCGAGCGUCugauAGGGGCuAGGUc -3'
miRNA:   3'- gaCGGagGCUUGCGG----UCCCCG-UCCGc -5'
13191 5' -62.4 NC_003401.1 + 42753 0.66 0.551553
Target:  5'- -cGCCcaugUCCGAGguaauCGCCGcaacGuGGGCGGGCGu -3'
miRNA:   3'- gaCGG----AGGCUU-----GCGGU----C-CCCGUCCGC- -5'
13191 5' -62.4 NC_003401.1 + 106903 0.66 0.549614
Target:  5'- uUGCCUCUGGuuggcgagaggcuACGCCGGcguuugcGGGUuuGGCGg -3'
miRNA:   3'- gACGGAGGCU-------------UGCGGUC-------CCCGu-CCGC- -5'
13191 5' -62.4 NC_003401.1 + 104381 0.67 0.541879
Target:  5'- cCUGCUUC---GCGCCacgAGGacGGCAGGCGa -3'
miRNA:   3'- -GACGGAGgcuUGCGG---UCC--CCGUCCGC- -5'
13191 5' -62.4 NC_003401.1 + 132681 0.67 0.522706
Target:  5'- -gGCC-CCGGGCcCgGGGGGCgucgGGGCGc -3'
miRNA:   3'- gaCGGaGGCUUGcGgUCCCCG----UCCGC- -5'
13191 5' -62.4 NC_003401.1 + 23604 0.67 0.522706
Target:  5'- gUGcCCUCCGAACGacCCGGcGcGGCGGGg- -3'
miRNA:   3'- gAC-GGAGGCUUGC--GGUC-C-CCGUCCgc -5'
13191 5' -62.4 NC_003401.1 + 132367 0.67 0.513218
Target:  5'- -cGCCggCCGGGCGCCuccGGGCccggccgcuAGGCa -3'
miRNA:   3'- gaCGGa-GGCUUGCGGuc-CCCG---------UCCGc -5'
13191 5' -62.4 NC_003401.1 + 119224 0.68 0.46693
Target:  5'- -cGCCggugCCGGcCGCCaagAGGGGCuGGUa -3'
miRNA:   3'- gaCGGa---GGCUuGCGG---UCCCCGuCCGc -5'
13191 5' -62.4 NC_003401.1 + 118677 0.68 0.457929
Target:  5'- aUGaCCcCCGcAACGCgAGGGGCcgcuGGCGc -3'
miRNA:   3'- gAC-GGaGGC-UUGCGgUCCCCGu---CCGC- -5'
13191 5' -62.4 NC_003401.1 + 92639 0.68 0.440213
Target:  5'- gUGCuCUCC-AGCGUgGGGGacGCGGGCGu -3'
miRNA:   3'- gACG-GAGGcUUGCGgUCCC--CGUCCGC- -5'
13191 5' -62.4 NC_003401.1 + 42344 0.69 0.422892
Target:  5'- -cGCgaCCGGcacGCGCUGGGccGGCAGGCGc -3'
miRNA:   3'- gaCGgaGGCU---UGCGGUCC--CCGUCCGC- -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.