miRNA display CGI


Results 1 - 20 of 187 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
19001 3' -63.1 NC_004684.1 + 15616 1.1 0.000222
Target:  5'- gCGGAUCAGCGCCUCCAGCGCCCGGCCc -3'
miRNA:   3'- -GCCUAGUCGCGGAGGUCGCGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 19431 0.88 0.00936
Target:  5'- uGGAUCAGCGCCUCC--CGCUCGGCCa -3'
miRNA:   3'- gCCUAGUCGCGGAGGucGCGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 64341 0.8 0.040529
Target:  5'- gGuGGUguGCGCCaacacCCAGCGCCUGGCCg -3'
miRNA:   3'- gC-CUAguCGCGGa----GGUCGCGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 40218 0.8 0.041653
Target:  5'- cCGaGGUCGGUGCCgaggccgCCAGCGCCCgcuacGGCCa -3'
miRNA:   3'- -GC-CUAGUCGCGGa------GGUCGCGGG-----CCGG- -5'
19001 3' -63.1 NC_004684.1 + 5986 0.79 0.052384
Target:  5'- gCGcGAUCAGCGCCgccgCCAcccggucaggcugguGCuGCCCGGCCu -3'
miRNA:   3'- -GC-CUAGUCGCGGa---GGU---------------CG-CGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 60296 0.78 0.059355
Target:  5'- cCGGuccUCGGCgGCCUCCAGgGCCuCGGCa -3'
miRNA:   3'- -GCCu--AGUCG-CGGAGGUCgCGG-GCCGg -5'
19001 3' -63.1 NC_004684.1 + 7513 0.76 0.081797
Target:  5'- aCGGGUCAGUGCCUgguagcgCCAGCGCCgGaaCCg -3'
miRNA:   3'- -GCCUAGUCGCGGA-------GGUCGCGGgCc-GG- -5'
19001 3' -63.1 NC_004684.1 + 37954 0.75 0.088863
Target:  5'- aCGGAUCGuGCGCCaaUGGUGCgCGGCCa -3'
miRNA:   3'- -GCCUAGU-CGCGGagGUCGCGgGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 26410 0.75 0.093725
Target:  5'- uCGGcaAUCGGCGgC-CCGGCgGCCUGGCCg -3'
miRNA:   3'- -GCC--UAGUCGCgGaGGUCG-CGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 50271 0.75 0.093725
Target:  5'- gGGGUCGuCGCUggCCAGCGCCaGGCCc -3'
miRNA:   3'- gCCUAGUcGCGGa-GGUCGCGGgCCGG- -5'
19001 3' -63.1 NC_004684.1 + 1227 0.74 0.115803
Target:  5'- uCGGccUCGGCgGCCUggUCGGuCGCCCGGCCc -3'
miRNA:   3'- -GCCu-AGUCG-CGGA--GGUC-GCGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 2102 0.74 0.118882
Target:  5'- uGGucaacGUCGGgGCggUCCAGCGCCCaGGCCa -3'
miRNA:   3'- gCC-----UAGUCgCGg-AGGUCGCGGG-CCGG- -5'
19001 3' -63.1 NC_004684.1 + 50027 0.73 0.131977
Target:  5'- uCGGcggCAGCGUggCCGGUGCCUGGCUc -3'
miRNA:   3'- -GCCua-GUCGCGgaGGUCGCGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 29438 0.73 0.131977
Target:  5'- aCGGA-CAGguccacCGCCUcCCAGCGCuuGGUCa -3'
miRNA:   3'- -GCCUaGUC------GCGGA-GGUCGCGggCCGG- -5'
19001 3' -63.1 NC_004684.1 + 25295 0.73 0.135452
Target:  5'- cCGGugaAGCcacCCggugCCAGCGCCUGGCCa -3'
miRNA:   3'- -GCCuagUCGc--GGa---GGUCGCGGGCCGG- -5'
19001 3' -63.1 NC_004684.1 + 9570 0.73 0.142289
Target:  5'- cCGGGUaCGGCuGCgcuugcccgccagCUCCAGCGCCCGGaacaCCa -3'
miRNA:   3'- -GCCUA-GUCG-CG-------------GAGGUCGCGGGCC----GG- -5'
19001 3' -63.1 NC_004684.1 + 8711 0.72 0.154123
Target:  5'- aGGAUCGGCGgUgCCGGUGCaCCGGgCu -3'
miRNA:   3'- gCCUAGUCGCgGaGGUCGCG-GGCCgG- -5'
19001 3' -63.1 NC_004684.1 + 56181 0.72 0.162225
Target:  5'- aCGG--CGGCGCUaUCgAGCGCCCGGUg -3'
miRNA:   3'- -GCCuaGUCGCGG-AGgUCGCGGGCCGg -5'
19001 3' -63.1 NC_004684.1 + 54258 0.72 0.166418
Target:  5'- cCGGGaCAGCuCCUcagCCAGCGCCgccaccCGGCCg -3'
miRNA:   3'- -GCCUaGUCGcGGA---GGUCGCGG------GCCGG- -5'
19001 3' -63.1 NC_004684.1 + 39883 0.72 0.166418
Target:  5'- uGGAcCGGCGCagcuaCCAGCGCaucgagaaCGGCCa -3'
miRNA:   3'- gCCUaGUCGCGga---GGUCGCGg-------GCCGG- -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.