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 + 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 + 34595 0.69 0.470917
Target:  5'- gGCGCGUCGCCgCGcgggUAGCgGUcgGCgCGGCu -3'
miRNA:   3'- -UGUGCAGCGG-GCa---GUCGgCG--UG-GCCG- -5'
22910 3' -61.4 NC_005137.2 + 51334 0.69 0.470917
Target:  5'- -gGgGUCGUCCG-CcGCCGCGCCuGCa -3'
miRNA:   3'- ugUgCAGCGGGCaGuCGGCGUGGcCG- -5'
22910 3' -61.4 NC_005137.2 + 13423 1.11 0.000665
Target:  5'- uACACGUCGCCCGUCAGCCGCACCGGCg -3'
miRNA:   3'- -UGUGCAGCGGGCAGUCGGCGUGGCCG- -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 + 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 + 112209 0.66 0.624427
Target:  5'- uCugGUCGCgCG-CAGCCG-ACUuGGCg -3'
miRNA:   3'- uGugCAGCGgGCaGUCGGCgUGG-CCG- -5'
22910 3' -61.4 NC_005137.2 + 18548 0.67 0.584942
Target:  5'- gGCGcCGUCGCCCaUCcugccGCCGCGuccaaCGGCc -3'
miRNA:   3'- -UGU-GCAGCGGGcAGu----CGGCGUg----GCCG- -5'
22910 3' -61.4 NC_005137.2 + 92911 0.69 0.489223
Target:  5'- cCGCGUUGCCCGUgGGCuugucCGUGgCGGUc -3'
miRNA:   3'- uGUGCAGCGGGCAgUCG-----GCGUgGCCG- -5'
22910 3' -61.4 NC_005137.2 + 66195 0.67 0.575135
Target:  5'- aACGcCGUCGCCCGauUCGGU-GCACauguuGGCg -3'
miRNA:   3'- -UGU-GCAGCGGGC--AGUCGgCGUGg----CCG- -5'
22910 3' -61.4 NC_005137.2 + 22380 0.67 0.604646
Target:  5'- uCGCGUgGCaCCGUCA-CCGCcACCaGGUu -3'
miRNA:   3'- uGUGCAgCG-GGCAGUcGGCG-UGG-CCG- -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 + 98098 0.67 0.565366
Target:  5'- uGCAUGUUGCgaguuUUGUCA-CCGcCGCCGGCu -3'
miRNA:   3'- -UGUGCAGCG-----GGCAGUcGGC-GUGGCCG- -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 + 126713 0.66 0.624427
Target:  5'- uGCACGcaCGgCC-UUAaCCGCACCGGCu -3'
miRNA:   3'- -UGUGCa-GCgGGcAGUcGGCGUGGCCG- -5'
22910 3' -61.4 NC_005137.2 + 28752 0.68 0.52678
Target:  5'- uACGCGUCGCCU---GGCa-CACCGGUc -3'
miRNA:   3'- -UGUGCAGCGGGcagUCGgcGUGGCCG- -5'
22910 3' -61.4 NC_005137.2 + 120779 0.69 0.470917
Target:  5'- aACGCGUacaccaGCuuGUgaCAGCCcaGCGCCGGUc -3'
miRNA:   3'- -UGUGCAg-----CGggCA--GUCGG--CGUGGCCG- -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 + 87213 0.66 0.634328
Target:  5'- uGC-CGUCGCUgaaaGUCGGCaaacccgcuggCGCGCUGGUa -3'
miRNA:   3'- -UGuGCAGCGGg---CAGUCG-----------GCGUGGCCG- -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.