miRNA display CGI


Results 1 - 20 of 21 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
27451 5' -61.9 NC_005869.1 + 26708 0.66 0.282648
Target:  5'- uCCgucUCCGGCgCAGuacuCCAGG-GCCGAGa -3'
miRNA:   3'- uGGa--AGGCCGgGUC----GGUCUgCGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 11826 0.66 0.282648
Target:  5'- cGCCUgcaUCCGcgucGCCC-GCuCGGGCGCCaGGGa -3'
miRNA:   3'- -UGGA---AGGC----CGGGuCG-GUCUGCGG-CUC- -5'
27451 5' -61.9 NC_005869.1 + 16420 0.66 0.261346
Target:  5'- uGCCUUCC--UCCAGCgGGACggccacaGCCGGGa -3'
miRNA:   3'- -UGGAAGGccGGGUCGgUCUG-------CGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 10010 0.67 0.230363
Target:  5'- gGCCaUCCuGGCCgAGCgCguGGugGCCGAc -3'
miRNA:   3'- -UGGaAGG-CCGGgUCG-G--UCugCGGCUc -5'
27451 5' -61.9 NC_005869.1 + 11949 0.67 0.22679
Target:  5'- cGCC-UCCaggauGGCCCcgaugcgguuGGCCAGgggcuggcucgcgaaGCGCCGAGa -3'
miRNA:   3'- -UGGaAGG-----CCGGG----------UCGGUC---------------UGCGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 6945 0.67 0.224434
Target:  5'- cGCCagCCGGCC---CCAGGCGCCGc- -3'
miRNA:   3'- -UGGaaGGCCGGgucGGUCUGCGGCuc -5'
27451 5' -61.9 NC_005869.1 + 9035 0.67 0.218635
Target:  5'- cGCCUgguggcgcucaacCUGGCCCAgguagucaugcgcgcGCgGGACGCCGAc -3'
miRNA:   3'- -UGGAa------------GGCCGGGU---------------CGgUCUGCGGCUc -5'
27451 5' -61.9 NC_005869.1 + 8605 0.68 0.202002
Target:  5'- uGCCc-CUGGCCCAGCUgcccgccugAGAccggccgccgcCGCCGAGg -3'
miRNA:   3'- -UGGaaGGCCGGGUCGG---------UCU-----------GCGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 16271 0.68 0.18648
Target:  5'- cGCUUggUGGUCCGGCCgcgGGACGCgGGGg -3'
miRNA:   3'- -UGGAagGCCGGGUCGG---UCUGCGgCUC- -5'
27451 5' -61.9 NC_005869.1 + 10623 0.68 0.176724
Target:  5'- aGCCg-CCGGCCgGcGCCcuGGGCGCgGAGg -3'
miRNA:   3'- -UGGaaGGCCGGgU-CGG--UCUGCGgCUC- -5'
27451 5' -61.9 NC_005869.1 + 12051 0.69 0.172018
Target:  5'- cACCaugCCGGCCUcGuCCGGGCggaugGCCGAGg -3'
miRNA:   3'- -UGGaa-GGCCGGGuC-GGUCUG-----CGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 3497 0.69 0.167424
Target:  5'- cCCUgacgcacgCCGGCCCAGCUGGGaagacgaGCUGAa -3'
miRNA:   3'- uGGAa-------GGCCGGGUCGGUCUg------CGGCUc -5'
27451 5' -61.9 NC_005869.1 + 27550 0.69 0.156846
Target:  5'- cGCC-UCCGagcuggaagaugccGUCCGGCCGGAgagugcuCGCCGAGa -3'
miRNA:   3'- -UGGaAGGC--------------CGGGUCGGUCU-------GCGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 16621 0.7 0.130809
Target:  5'- cGCCgggcgggCCGGCCCcaGGCCGucguGGCGCCGcAGc -3'
miRNA:   3'- -UGGaa-----GGCCGGG--UCGGU----CUGCGGC-UC- -5'
27451 5' -61.9 NC_005869.1 + 7714 0.71 0.113804
Target:  5'- gGCC--CCGGCCU-GCCGGACGaccCCGAGg -3'
miRNA:   3'- -UGGaaGGCCGGGuCGGUCUGC---GGCUC- -5'
27451 5' -61.9 NC_005869.1 + 24405 0.73 0.083414
Target:  5'- gGCCgcccCCGGCgCAGCCgcggAGGcCGCCGAGg -3'
miRNA:   3'- -UGGaa--GGCCGgGUCGG----UCU-GCGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 7762 0.73 0.083414
Target:  5'- cACCUgCUGGCCCAcaacCCAGAccuCGCCGAGc -3'
miRNA:   3'- -UGGAaGGCCGGGUc---GGUCU---GCGGCUC- -5'
27451 5' -61.9 NC_005869.1 + 13226 0.73 0.081072
Target:  5'- cGCCgcUCCaGCCUGGCCAGcgGCGCCGAc -3'
miRNA:   3'- -UGGa-AGGcCGGGUCGGUC--UGCGGCUc -5'
27451 5' -61.9 NC_005869.1 + 16677 0.76 0.048289
Target:  5'- gGCCUggggCCGGCCC-GCCcGGCGCgGAGc -3'
miRNA:   3'- -UGGAa---GGCCGGGuCGGuCUGCGgCUC- -5'
27451 5' -61.9 NC_005869.1 + 18853 0.76 0.044259
Target:  5'- aGCCgcggCCGgaGCCgCGGCCGGACGCCGAc -3'
miRNA:   3'- -UGGaa--GGC--CGG-GUCGGUCUGCGGCUc -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.