miRNA display CGI


Results 1 - 20 of 60 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
22910 3' -61.4 NC_005137.2 + 88505 0.66 0.673846
Target:  5'- -aAUGUCGCCgCG-CAGCaaGCGCCGuGUg -3'
miRNA:   3'- ugUGCAGCGG-GCaGUCGg-CGUGGC-CG- -5'
22910 3' -61.4 NC_005137.2 + 30931 0.66 0.667938
Target:  5'- aGCACGUgcgCGCgCCG-CGGCacaaagcaugcugaaCGCGCCGcGCg -3'
miRNA:   3'- -UGUGCA---GCG-GGCaGUCG---------------GCGUGGC-CG- -5'
22910 3' -61.4 NC_005137.2 + 61697 0.66 0.666953
Target:  5'- cGCAUGUCGUCCGUUugcacgaucauaaAauuacgccuaaacgcGCCGCgACCGcGCa -3'
miRNA:   3'- -UGUGCAGCGGGCAG-------------U---------------CGGCG-UGGC-CG- -5'
22910 3' -61.4 NC_005137.2 + 112443 0.66 0.663995
Target:  5'- ---aGUCGgCCGUUGGaCGCGgCGGCa -3'
miRNA:   3'- ugugCAGCgGGCAGUCgGCGUgGCCG- -5'
22910 3' -61.4 NC_005137.2 + 118042 0.66 0.663995
Target:  5'- gAUGCGUgCcaaCCCGUUuguGGCCGCGCCGcaGCg -3'
miRNA:   3'- -UGUGCA-Gc--GGGCAG---UCGGCGUGGC--CG- -5'
22910 3' -61.4 NC_005137.2 + 67739 0.66 0.663995
Target:  5'- gACGCGUuugaauaaUGUCCGa-AGCgCGCACCGGg -3'
miRNA:   3'- -UGUGCA--------GCGGGCagUCG-GCGUGGCCg -5'
22910 3' -61.4 NC_005137.2 + 49746 0.66 0.663995
Target:  5'- gGCGCGUCGUuuGUUuGCUuuGCCaGCg -3'
miRNA:   3'- -UGUGCAGCGggCAGuCGGcgUGGcCG- -5'
22910 3' -61.4 NC_005137.2 + 129504 0.66 0.663995
Target:  5'- aACGCGUCgGCgCCGcgCGGCggaaUGUACCGGa -3'
miRNA:   3'- -UGUGCAG-CG-GGCa-GUCG----GCGUGGCCg -5'
22910 3' -61.4 NC_005137.2 + 75970 0.66 0.65412
Target:  5'- gACGCGgCGCgCGUUGGUgcacggCGCACgGGCc -3'
miRNA:   3'- -UGUGCaGCGgGCAGUCG------GCGUGgCCG- -5'
22910 3' -61.4 NC_005137.2 + 5976 0.66 0.65412
Target:  5'- gGCucCGUUGCCuCGcCAcGCCGCaaccgaucGCCGGUg -3'
miRNA:   3'- -UGu-GCAGCGG-GCaGU-CGGCG--------UGGCCG- -5'
22910 3' -61.4 NC_005137.2 + 100948 0.66 0.644229
Target:  5'- uCACGg-GCCCGgCAGCUGUGCCuGUg -3'
miRNA:   3'- uGUGCagCGGGCaGUCGGCGUGGcCG- -5'
22910 3' -61.4 NC_005137.2 + 47019 0.66 0.644229
Target:  5'- cGCAaucUGUCGCuCCGUCAuggacGCCuGCACC-GCu -3'
miRNA:   3'- -UGU---GCAGCG-GGCAGU-----CGG-CGUGGcCG- -5'
22910 3' -61.4 NC_005137.2 + 35407 0.66 0.644229
Target:  5'- aGCACGUCGCgCa-CAG-UGCGCgGGCg -3'
miRNA:   3'- -UGUGCAGCGgGcaGUCgGCGUGgCCG- -5'
22910 3' -61.4 NC_005137.2 + 87213 0.66 0.634328
Target:  5'- uGC-CGUCGCUgaaaGUCGGCaaacccgcuggCGCGCUGGUa -3'
miRNA:   3'- -UGuGCAGCGGg---CAGUCG-----------GCGUGGCCG- -5'
22910 3' -61.4 NC_005137.2 + 119740 0.66 0.634328
Target:  5'- aGCGCGUaGCggaCGUCAG-CGCGCUGGa -3'
miRNA:   3'- -UGUGCAgCGg--GCAGUCgGCGUGGCCg -5'
22910 3' -61.4 NC_005137.2 + 20579 0.66 0.634328
Target:  5'- uGCACGcucaccgucgCGCCCGUU-GCCaGCugCGGa -3'
miRNA:   3'- -UGUGCa---------GCGGGCAGuCGG-CGugGCCg -5'
22910 3' -61.4 NC_005137.2 + 126713 0.66 0.624427
Target:  5'- uGCACGcaCGgCC-UUAaCCGCACCGGCu -3'
miRNA:   3'- -UGUGCa-GCgGGcAGUcGGCGUGGCCG- -5'
22910 3' -61.4 NC_005137.2 + 112209 0.66 0.624427
Target:  5'- uCugGUCGCgCG-CAGCCG-ACUuGGCg -3'
miRNA:   3'- uGugCAGCGgGCaGUCGGCgUGG-CCG- -5'
22910 3' -61.4 NC_005137.2 + 67983 0.66 0.624427
Target:  5'- cGCACGUCG-UCGUUGGCCaCGCgCGaGCa -3'
miRNA:   3'- -UGUGCAGCgGGCAGUCGGcGUG-GC-CG- -5'
22910 3' -61.4 NC_005137.2 + 39756 0.66 0.624427
Target:  5'- uGCACGaCGUCCGUCAuauuccCCGgCACgUGGCa -3'
miRNA:   3'- -UGUGCaGCGGGCAGUc-----GGC-GUG-GCCG- -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.