miRNA display CGI


Results 1 - 20 of 33 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
28064 3' -53.9 NC_005887.1 + 12268 1.11 0.000699
Target:  5'- gCGGUCGACAAGUACAUGCGCCAGCUCg -3'
miRNA:   3'- -GCCAGCUGUUCAUGUACGCGGUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 34640 0.74 0.289307
Target:  5'- uCGcGUCGACGAGgc---GCGCCGGCUUg -3'
miRNA:   3'- -GC-CAGCUGUUCauguaCGCGGUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 9050 0.73 0.3023
Target:  5'- ---cCGACGAGUACguacgcggauggaaGUGCGCCGGCUg -3'
miRNA:   3'- gccaGCUGUUCAUG--------------UACGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 30329 0.72 0.372121
Target:  5'- aCGGUUGcgaGCGGcGUGCGUGCGCCGGaugUCu -3'
miRNA:   3'- -GCCAGC---UGUU-CAUGUACGCGGUCg--AG- -5'
28064 3' -53.9 NC_005887.1 + 36350 0.72 0.372121
Target:  5'- aGGcCGACGAGggggACAggaGCGCguGCUCc -3'
miRNA:   3'- gCCaGCUGUUCa---UGUa--CGCGguCGAG- -5'
28064 3' -53.9 NC_005887.1 + 41695 0.71 0.390508
Target:  5'- uGGUCGGC-GGU-CAUGCGCguGCg- -3'
miRNA:   3'- gCCAGCUGuUCAuGUACGCGguCGag -5'
28064 3' -53.9 NC_005887.1 + 27702 0.71 0.429012
Target:  5'- cCGG-CGACGGGcaGCAccGCGCCGGCUg -3'
miRNA:   3'- -GCCaGCUGUUCa-UGUa-CGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 11027 0.69 0.489653
Target:  5'- cCGGUCGGCAcGUGgGacgugaccaccggUGCGCCgaugccggucgAGCUCg -3'
miRNA:   3'- -GCCAGCUGUuCAUgU-------------ACGCGG-----------UCGAG- -5'
28064 3' -53.9 NC_005887.1 + 24988 0.69 0.512195
Target:  5'- aGGUCGGgGuAGUugcCGaGCGUCAGCUCg -3'
miRNA:   3'- gCCAGCUgU-UCAu--GUaCGCGGUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 778 0.69 0.545105
Target:  5'- uGGcCGACAGGaACGUcucgGCGCUGGCUg -3'
miRNA:   3'- gCCaGCUGUUCaUGUA----CGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 1110 0.69 0.545105
Target:  5'- -cGcCGAgCAGGUGCGUGUGCUugucgAGCUCg -3'
miRNA:   3'- gcCaGCU-GUUCAUGUACGCGG-----UCGAG- -5'
28064 3' -53.9 NC_005887.1 + 26219 0.68 0.556231
Target:  5'- uGGUUGGCgGGGUGguUGCGCgCGGCg- -3'
miRNA:   3'- gCCAGCUG-UUCAUguACGCG-GUCGag -5'
28064 3' -53.9 NC_005887.1 + 12868 0.68 0.567421
Target:  5'- aGGcacgaccgUGGCAGGUGcCGUGCGCgAGCUg -3'
miRNA:   3'- gCCa-------GCUGUUCAU-GUACGCGgUCGAg -5'
28064 3' -53.9 NC_005887.1 + 18399 0.68 0.578668
Target:  5'- aGGUCGuc-GGUGCGUGCGCagaCGGC-Cg -3'
miRNA:   3'- gCCAGCuguUCAUGUACGCG---GUCGaG- -5'
28064 3' -53.9 NC_005887.1 + 39700 0.68 0.578668
Target:  5'- gGGUCGguaucGCGAGUGCccGCcGCCAcCUCa -3'
miRNA:   3'- gCCAGC-----UGUUCAUGuaCG-CGGUcGAG- -5'
28064 3' -53.9 NC_005887.1 + 31442 0.68 0.589962
Target:  5'- cCGGcCGACGu---CAucUGCGCCGGCUg -3'
miRNA:   3'- -GCCaGCUGUucauGU--ACGCGGUCGAg -5'
28064 3' -53.9 NC_005887.1 + 1405 0.67 0.612655
Target:  5'- gCGGUCGA-----GCAUGCGCuCGGCg- -3'
miRNA:   3'- -GCCAGCUguucaUGUACGCG-GUCGag -5'
28064 3' -53.9 NC_005887.1 + 32175 0.67 0.620618
Target:  5'- aGGUCGGCGcucagcgaugagccAGUGCcaGUGCGgCCAgaggugccGCUCg -3'
miRNA:   3'- gCCAGCUGU--------------UCAUG--UACGC-GGU--------CGAG- -5'
28064 3' -53.9 NC_005887.1 + 8081 0.67 0.624033
Target:  5'- uGGUCGuucACGAaaGCGcGCGCgCAGCUCg -3'
miRNA:   3'- gCCAGC---UGUUcaUGUaCGCG-GUCGAG- -5'
28064 3' -53.9 NC_005887.1 + 18547 0.67 0.646802
Target:  5'- uCGGUgGGCG---GCG-GCGCCGGCUUc -3'
miRNA:   3'- -GCCAgCUGUucaUGUaCGCGGUCGAG- -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.