miRNA display CGI


Results 1 - 19 of 19 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
20428 3' -62.3 NC_004688.1 + 81294 0.66 0.506844
Target:  5'- aGACgcGCCGCCcucgucguuguacccGGcGUCAGGUCGGGCa -3'
miRNA:   3'- -UUGaaCGGCGG---------------CC-CGGUCCGGUCUGa -5'
20428 3' -62.3 NC_004688.1 + 89884 0.66 0.500082
Target:  5'- cGGCUcGCCGCCuGGCCGggguccgcuuccguGGCC-GACg -3'
miRNA:   3'- -UUGAaCGGCGGcCCGGU--------------CCGGuCUGa -5'
20428 3' -62.3 NC_004688.1 + 41769 0.66 0.493361
Target:  5'- gGGC-UGCCGUcuucgacaauCGGGCCAGGgagguaugcCCAGGCc -3'
miRNA:   3'- -UUGaACGGCG----------GCCCGGUCC---------GGUCUGa -5'
20428 3' -62.3 NC_004688.1 + 93492 0.66 0.493361
Target:  5'- cGCaUGucCCGCCGcGGCCGGGCguGAg- -3'
miRNA:   3'- uUGaAC--GGCGGC-CCGGUCCGguCUga -5'
20428 3' -62.3 NC_004688.1 + 26397 0.66 0.465044
Target:  5'- ----cGCCGCCGaGGCCGccggagcuGCCGGACc -3'
miRNA:   3'- uugaaCGGCGGC-CCGGUc-------CGGUCUGa -5'
20428 3' -62.3 NC_004688.1 + 34812 0.67 0.455793
Target:  5'- uGAUcgGCCGauGGGCCGGGUC-GACa -3'
miRNA:   3'- -UUGaaCGGCggCCCGGUCCGGuCUGa -5'
20428 3' -62.3 NC_004688.1 + 39868 0.67 0.455793
Target:  5'- uGCU--CCGCCGGGUCcgguGGCgCAGGCg -3'
miRNA:   3'- uUGAacGGCGGCCCGGu---CCG-GUCUGa -5'
20428 3' -62.3 NC_004688.1 + 17447 0.67 0.446643
Target:  5'- cGCUUGCgGCCGGGUgaacgaaguCGGGugcggugcuCCAGGCg -3'
miRNA:   3'- uUGAACGgCGGCCCG---------GUCC---------GGUCUGa -5'
20428 3' -62.3 NC_004688.1 + 26194 0.67 0.428655
Target:  5'- cACcUGCCGCacCGGgcauGCCGGuGCCGGGCUg -3'
miRNA:   3'- uUGaACGGCG--GCC----CGGUC-CGGUCUGA- -5'
20428 3' -62.3 NC_004688.1 + 31486 0.68 0.402493
Target:  5'- gAACgUUGUCG-CGGGCgAGGCCGGGgUg -3'
miRNA:   3'- -UUG-AACGGCgGCCCGgUCCGGUCUgA- -5'
20428 3' -62.3 NC_004688.1 + 6781 0.68 0.394
Target:  5'- ----aGCCGCCGcaGGCCuGGGCCucuucGGACUg -3'
miRNA:   3'- uugaaCGGCGGC--CCGG-UCCGG-----UCUGA- -5'
20428 3' -62.3 NC_004688.1 + 78811 0.68 0.36923
Target:  5'- uGACUUGCCuagcCCGGGCgGGGCggccagcauUAGGCUc -3'
miRNA:   3'- -UUGAACGGc---GGCCCGgUCCG---------GUCUGA- -5'
20428 3' -62.3 NC_004688.1 + 74695 0.68 0.361214
Target:  5'- aGGCgggUGCCGUCGGcGCCGaugccgauaucGGCCAGgACa -3'
miRNA:   3'- -UUGa--ACGGCGGCC-CGGU-----------CCGGUC-UGa -5'
20428 3' -62.3 NC_004688.1 + 59305 0.68 0.361214
Target:  5'- cGACgcgaugGCCGCCGccGGCUAcGGCCGGAa- -3'
miRNA:   3'- -UUGaa----CGGCGGC--CCGGU-CCGGUCUga -5'
20428 3' -62.3 NC_004688.1 + 91339 0.7 0.30152
Target:  5'- uGCUUGCUGCCGcGGC---GCCAGGCg -3'
miRNA:   3'- uUGAACGGCGGC-CCGgucCGGUCUGa -5'
20428 3' -62.3 NC_004688.1 + 55381 0.7 0.268237
Target:  5'- ----cGCCGCCGGGCUcggcuGGCC-GACg -3'
miRNA:   3'- uugaaCGGCGGCCCGGu----CCGGuCUGa -5'
20428 3' -62.3 NC_004688.1 + 87263 0.74 0.157478
Target:  5'- --aUUGCCGCCGGGCUccAGGCCcccccgcccacgccaGGGCg -3'
miRNA:   3'- uugAACGGCGGCCCGG--UCCGG---------------UCUGa -5'
20428 3' -62.3 NC_004688.1 + 14875 0.84 0.029
Target:  5'- aGACUUGCCGCCGGGCCagaggAGGCUcGACa -3'
miRNA:   3'- -UUGAACGGCGGCCCGG-----UCCGGuCUGa -5'
20428 3' -62.3 NC_004688.1 + 15845 1.04 0.000912
Target:  5'- aAACUUGCCGCCGGGCCAGGCCAGACUc -3'
miRNA:   3'- -UUGAACGGCGGCCCGGUCCGGUCUGA- -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.