miRNA display CGI


Results 1 - 20 of 70 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
13007 3' -55.4 NC_003387.1 + 52601 1.08 0.000925
Target:  5'- gCGAGCUCAGCAAACACGCCCUGACCUg -3'
miRNA:   3'- -GCUCGAGUCGUUUGUGCGGGACUGGA- -5'
13007 3' -55.4 NC_003387.1 + 48646 0.78 0.130566
Target:  5'- gCGAGCaugCGGCAGaacccGCACGCCgUGACCg -3'
miRNA:   3'- -GCUCGa--GUCGUU-----UGUGCGGgACUGGa -5'
13007 3' -55.4 NC_003387.1 + 48292 0.76 0.197636
Target:  5'- gCGGGCUCGGCGA--ACGCCUUGcCCa -3'
miRNA:   3'- -GCUCGAGUCGUUugUGCGGGACuGGa -5'
13007 3' -55.4 NC_003387.1 + 31050 0.75 0.20304
Target:  5'- aGGGCgUCGGCGAACACGUgCUcGGCCg -3'
miRNA:   3'- gCUCG-AGUCGUUUGUGCGgGA-CUGGa -5'
13007 3' -55.4 NC_003387.1 + 246 0.75 0.208573
Target:  5'- cCGAcauGCUCAGCGuGCAgUGCCCUGGCUg -3'
miRNA:   3'- -GCU---CGAGUCGUuUGU-GCGGGACUGGa -5'
13007 3' -55.4 NC_003387.1 + 16615 0.74 0.238213
Target:  5'- uCGAcCUCGGCAcGCGCGCCCUGuuCg -3'
miRNA:   3'- -GCUcGAGUCGUuUGUGCGGGACugGa -5'
13007 3' -55.4 NC_003387.1 + 21808 0.74 0.238213
Target:  5'- -cAGCUCGGCGAGCgACGCCgUGGCg- -3'
miRNA:   3'- gcUCGAGUCGUUUG-UGCGGgACUGga -5'
13007 3' -55.4 NC_003387.1 + 6783 0.74 0.244549
Target:  5'- gCGGGCcgUCGGCGAACACGCUCgGGCa- -3'
miRNA:   3'- -GCUCG--AGUCGUUUGUGCGGGaCUGga -5'
13007 3' -55.4 NC_003387.1 + 9972 0.73 0.278342
Target:  5'- gGGGCaccacgCAGCcgauccGAGCACGCCCUGACg- -3'
miRNA:   3'- gCUCGa-----GUCG------UUUGUGCGGGACUGga -5'
13007 3' -55.4 NC_003387.1 + 21352 0.73 0.285531
Target:  5'- aCGAcCUgCAGCcGACGCuGCCCUGGCCg -3'
miRNA:   3'- -GCUcGA-GUCGuUUGUG-CGGGACUGGa -5'
13007 3' -55.4 NC_003387.1 + 3529 0.72 0.315752
Target:  5'- gCGGGCUCAGCAAcgucgacggccGC-CGCCUgcgcGACCg -3'
miRNA:   3'- -GCUCGAGUCGUU-----------UGuGCGGGa---CUGGa -5'
13007 3' -55.4 NC_003387.1 + 47749 0.72 0.323675
Target:  5'- cCGAccuGCUgcGCGAGCACGgCCUGACCg -3'
miRNA:   3'- -GCU---CGAguCGUUUGUGCgGGACUGGa -5'
13007 3' -55.4 NC_003387.1 + 21176 0.72 0.355977
Target:  5'- gGAGCUUuccgaggAGCAGguGCACGCCgugCUGGCCg -3'
miRNA:   3'- gCUCGAG-------UCGUU--UGUGCGG---GACUGGa -5'
13007 3' -55.4 NC_003387.1 + 47010 0.72 0.356835
Target:  5'- --cGgUCAGCGAcgacgcggGCACGCCCuUGACCg -3'
miRNA:   3'- gcuCgAGUCGUU--------UGUGCGGG-ACUGGa -5'
13007 3' -55.4 NC_003387.1 + 26441 0.71 0.363746
Target:  5'- cCGAGCauugcgacguugCGGuCGAGCACGCCCaugcUGACCa -3'
miRNA:   3'- -GCUCGa-----------GUC-GUUUGUGCGGG----ACUGGa -5'
13007 3' -55.4 NC_003387.1 + 8808 0.71 0.374286
Target:  5'- --cGCUCAGCu--CGCGCCCgaacuUGGCCg -3'
miRNA:   3'- gcuCGAGUCGuuuGUGCGGG-----ACUGGa -5'
13007 3' -55.4 NC_003387.1 + 1564 0.71 0.392308
Target:  5'- cCGAGgaCGGCGAAgcgccuaACGCCCUGGCg- -3'
miRNA:   3'- -GCUCgaGUCGUUUg------UGCGGGACUGga -5'
13007 3' -55.4 NC_003387.1 + 6959 0.71 0.392308
Target:  5'- gCGGGCa-GGCGccacAGCGCGCCCUcGGCCa -3'
miRNA:   3'- -GCUCGagUCGU----UUGUGCGGGA-CUGGa -5'
13007 3' -55.4 NC_003387.1 + 49118 0.71 0.401528
Target:  5'- -cAGCUCGGCcAGgACGCCCUGAa-- -3'
miRNA:   3'- gcUCGAGUCGuUUgUGCGGGACUgga -5'
13007 3' -55.4 NC_003387.1 + 21700 0.71 0.401528
Target:  5'- --cGcCUCGGCGAGCGCgGCCCgcgccGACCUg -3'
miRNA:   3'- gcuC-GAGUCGUUUGUG-CGGGa----CUGGA- -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.