miRNA display CGI


Results 1 - 20 of 28 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
31889 3' -56.6 NC_006938.1 + 34188 0.66 0.701038
Target:  5'- gAUgAUGGCCucGGcCGUGUagAGCGCg -3'
miRNA:   3'- -UAgUGCCGGcuCCaGCACGagUUGCG- -5'
31889 3' -56.6 NC_006938.1 + 51475 0.66 0.701038
Target:  5'- cGUCGCGGCCGGaGcCGggGCagUCGAgGCg -3'
miRNA:   3'- -UAGUGCCGGCUcCaGCa-CG--AGUUgCG- -5'
31889 3' -56.6 NC_006938.1 + 27189 0.66 0.701038
Target:  5'- --gGCGGUCaAGGagGUGCUCAACc- -3'
miRNA:   3'- uagUGCCGGcUCCagCACGAGUUGcg -5'
31889 3' -56.6 NC_006938.1 + 62597 0.66 0.690389
Target:  5'- uGUCGCGGCgagCGAGGUCGUccggauccaGCacUCGuACGUu -3'
miRNA:   3'- -UAGUGCCG---GCUCCAGCA---------CG--AGU-UGCG- -5'
31889 3' -56.6 NC_006938.1 + 29328 0.66 0.690389
Target:  5'- cAUCAUGcGCCG-GGUgGUGCgCGACa- -3'
miRNA:   3'- -UAGUGC-CGGCuCCAgCACGaGUUGcg -5'
31889 3' -56.6 NC_006938.1 + 52918 0.66 0.690389
Target:  5'- cGUCACGGCCacaacgcAGGUCuggGUGaaCAACGUc -3'
miRNA:   3'- -UAGUGCCGGc------UCCAG---CACgaGUUGCG- -5'
31889 3' -56.6 NC_006938.1 + 2446 0.66 0.683973
Target:  5'- -aCGCuGGCuggaCGAGGcCGacuaucgcaaggaccUGCUCAACGCg -3'
miRNA:   3'- uaGUG-CCG----GCUCCaGC---------------ACGAGUUGCG- -5'
31889 3' -56.6 NC_006938.1 + 42526 0.66 0.647354
Target:  5'- uUC-CGGCCGAGGgaguggcaggCGUcGCUCcggcCGCg -3'
miRNA:   3'- uAGuGCCGGCUCCa---------GCA-CGAGuu--GCG- -5'
31889 3' -56.6 NC_006938.1 + 30084 0.67 0.625716
Target:  5'- cGUCgGCGGCauGGGUCG-GUUCGGCGg -3'
miRNA:   3'- -UAG-UGCCGgcUCCAGCaCGAGUUGCg -5'
31889 3' -56.6 NC_006938.1 + 37942 0.67 0.625716
Target:  5'- --gGCGGUgGAGGcgUCG-GCUCuGGCGCg -3'
miRNA:   3'- uagUGCCGgCUCC--AGCaCGAG-UUGCG- -5'
31889 3' -56.6 NC_006938.1 + 45798 0.67 0.625716
Target:  5'- -aCAaGGCCGAGGccCGUGC-CAcguucuccGCGCa -3'
miRNA:   3'- uaGUgCCGGCUCCa-GCACGaGU--------UGCG- -5'
31889 3' -56.6 NC_006938.1 + 56348 0.67 0.619225
Target:  5'- uUCGCGGCUccgacccuccugcugGAGGgaaGcUGCUaCAACGCg -3'
miRNA:   3'- uAGUGCCGG---------------CUCCag-C-ACGA-GUUGCG- -5'
31889 3' -56.6 NC_006938.1 + 14243 0.67 0.604099
Target:  5'- --gGCGGCCgGAGG--GUGCUCcgucuGGCGCa -3'
miRNA:   3'- uagUGCCGG-CUCCagCACGAG-----UUGCG- -5'
31889 3' -56.6 NC_006938.1 + 23774 0.67 0.593322
Target:  5'- --gAgGGCCGGuGUCacGCUCAGCGCa -3'
miRNA:   3'- uagUgCCGGCUcCAGcaCGAGUUGCG- -5'
31889 3' -56.6 NC_006938.1 + 16965 0.68 0.582575
Target:  5'- -gCugGGCCuugcgGAGGUCGUcCUCGggaguugggagGCGCa -3'
miRNA:   3'- uaGugCCGG-----CUCCAGCAcGAGU-----------UGCG- -5'
31889 3' -56.6 NC_006938.1 + 47956 0.68 0.582575
Target:  5'- gGUCGgguCGGCCGuGGUCGacUGCagGACGg -3'
miRNA:   3'- -UAGU---GCCGGCuCCAGC--ACGagUUGCg -5'
31889 3' -56.6 NC_006938.1 + 23703 0.68 0.571869
Target:  5'- -gCAUGGCCGAGa---UGCUCgAGCGCg -3'
miRNA:   3'- uaGUGCCGGCUCcagcACGAG-UUGCG- -5'
31889 3' -56.6 NC_006938.1 + 24715 0.68 0.571869
Target:  5'- -cCGUGGCCGGGGUCGUaGCgccggagguaGACGUg -3'
miRNA:   3'- uaGUGCCGGCUCCAGCA-CGag--------UUGCG- -5'
31889 3' -56.6 NC_006938.1 + 28861 0.68 0.550607
Target:  5'- cUCugGGUCGAGGUcCGgcacgaGCUCGG-GCa -3'
miRNA:   3'- uAGugCCGGCUCCA-GCa-----CGAGUUgCG- -5'
31889 3' -56.6 NC_006938.1 + 23585 0.68 0.540066
Target:  5'- cUCGCGGCUGGcuUCGaGCUCGGCGa -3'
miRNA:   3'- uAGUGCCGGCUccAGCaCGAGUUGCg -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.