miRNA display CGI


Results 1 - 20 of 34 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
22342 3' -53.5 NC_005045.1 + 23806 1.12 0.000847
Target:  5'- cCGGCGUCUUCAACCAACACGCGGACCc -3'
miRNA:   3'- -GCCGCAGAAGUUGGUUGUGCGCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 6494 0.66 0.752676
Target:  5'- gCGGCGUgUgccggUAGCCuugugcauuacAugGCGCaGGACCu -3'
miRNA:   3'- -GCCGCAgAa----GUUGG-----------UugUGCG-CCUGG- -5'
22342 3' -53.5 NC_005045.1 + 23714 0.66 0.752676
Target:  5'- gGGCGUCcu-GACCuaugucGAUGCGCaGACCa -3'
miRNA:   3'- gCCGCAGaagUUGG------UUGUGCGcCUGG- -5'
22342 3' -53.5 NC_005045.1 + 4401 0.66 0.763143
Target:  5'- uCGGCGUag-CAGCUuggGACAgCaCGGGCCg -3'
miRNA:   3'- -GCCGCAgaaGUUGG---UUGU-GcGCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 15179 0.66 0.773471
Target:  5'- uGGCug---CGGCCAcUACGCGGACa -3'
miRNA:   3'- gCCGcagaaGUUGGUuGUGCGCCUGg -5'
22342 3' -53.5 NC_005045.1 + 30555 0.66 0.773471
Target:  5'- gCGG-GUCUgcUC-ACCAGCgACaCGGGCCg -3'
miRNA:   3'- -GCCgCAGA--AGuUGGUUG-UGcGCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 40818 0.66 0.773471
Target:  5'- -aGCG-CUUCAACCAAggcCGCGCcacugaGGGCUg -3'
miRNA:   3'- gcCGCaGAAGUUGGUU---GUGCG------CCUGG- -5'
22342 3' -53.5 NC_005045.1 + 8986 0.66 0.783647
Target:  5'- uGGCccacGUCaagggUGGCCAGCGCaaGGACCa -3'
miRNA:   3'- gCCG----CAGaa---GUUGGUUGUGcgCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 37004 0.66 0.783647
Target:  5'- uGGCGagaaagugCAuACUGGCACGgGGACCu -3'
miRNA:   3'- gCCGCagaa----GU-UGGUUGUGCgCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 18206 0.66 0.751622
Target:  5'- gCGGCGgggcCggCAGCCAagcuccgGCACuugcuGCGGAUCa -3'
miRNA:   3'- -GCCGCa---GaaGUUGGU-------UGUG-----CGCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 33583 0.66 0.738879
Target:  5'- uGGCuGUCcgCGACCAGCucaacgagcaggucACGCGGgagcugcugcGCCg -3'
miRNA:   3'- gCCG-CAGaaGUUGGUUG--------------UGCGCC----------UGG- -5'
22342 3' -53.5 NC_005045.1 + 13202 0.67 0.731371
Target:  5'- aGGCGcCUUCAG-CGAgAUG-GGGCCg -3'
miRNA:   3'- gCCGCaGAAGUUgGUUgUGCgCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 27477 0.75 0.283522
Target:  5'- uGGUGUUUgguACCAGCACGgCGGACg -3'
miRNA:   3'- gCCGCAGAaguUGGUUGUGC-GCCUGg -5'
22342 3' -53.5 NC_005045.1 + 35303 0.73 0.390761
Target:  5'- cCGGCcucggCUUCAccGCCGACAUGUGGGgCg -3'
miRNA:   3'- -GCCGca---GAAGU--UGGUUGUGCGCCUgG- -5'
22342 3' -53.5 NC_005045.1 + 18942 0.72 0.409448
Target:  5'- aGcGCGUCUUCAAcuCCGGgGCGgGGugCu -3'
miRNA:   3'- gC-CGCAGAAGUU--GGUUgUGCgCCugG- -5'
22342 3' -53.5 NC_005045.1 + 34378 0.7 0.510523
Target:  5'- gGGCGUCUUCGgggacuucACCGGCAacgugcCGCGuGAgCa -3'
miRNA:   3'- gCCGCAGAAGU--------UGGUUGU------GCGC-CUgG- -5'
22342 3' -53.5 NC_005045.1 + 34528 0.7 0.553835
Target:  5'- gGGCGUCUUCAACgu-UAUGaaGGCCa -3'
miRNA:   3'- gCCGCAGAAGUUGguuGUGCgcCUGG- -5'
22342 3' -53.5 NC_005045.1 + 13987 0.68 0.631768
Target:  5'- cCGGCcuuaaaUCUUCAuCCGACACGagagaGaGACCa -3'
miRNA:   3'- -GCCGc-----AGAAGUuGGUUGUGCg----C-CUGG- -5'
22342 3' -53.5 NC_005045.1 + 7671 0.67 0.68762
Target:  5'- uCGGCuuaUCUUCccuACCG--ACGCGGGCUg -3'
miRNA:   3'- -GCCGc--AGAAGu--UGGUugUGCGCCUGG- -5'
22342 3' -53.5 NC_005045.1 + 2845 0.67 0.69867
Target:  5'- cCGGCGggccgCUgcaacgCAGCCGACAUgGCGcugugcGACCa -3'
miRNA:   3'- -GCCGCa----GAa-----GUUGGUUGUG-CGC------CUGG- -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.