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
24311 3' -57.6 NC_005263.2 + 41682 0.66 0.540862
Target:  5'- -cGUCgGGCGcggacUGcGGCCGUaCGCGGGc- -3'
miRNA:   3'- uaCAGgCCGU-----AC-CCGGCA-GCGCUUug -5'
24311 3' -57.6 NC_005263.2 + 26243 0.66 0.530162
Target:  5'- -cGUCUuGCc--GGCCGUCGCGAAcGCg -3'
miRNA:   3'- uaCAGGcCGuacCCGGCAGCGCUU-UG- -5'
24311 3' -57.6 NC_005263.2 + 39039 0.66 0.530162
Target:  5'- cUGUUCGGCAcGGGCgacuucuUCGCGAAcGCg -3'
miRNA:   3'- uACAGGCCGUaCCCGgc-----AGCGCUU-UG- -5'
24311 3' -57.6 NC_005263.2 + 31477 0.66 0.519541
Target:  5'- -aGUUCGGCGccUGGcCCGUCaGCGgcGCg -3'
miRNA:   3'- uaCAGGCCGU--ACCcGGCAG-CGCuuUG- -5'
24311 3' -57.6 NC_005263.2 + 16855 0.67 0.488209
Target:  5'- cUGcCCGGCGccGcGCCG-CGCGGAACc -3'
miRNA:   3'- uACaGGCCGUacC-CGGCaGCGCUUUG- -5'
24311 3' -57.6 NC_005263.2 + 41158 0.68 0.428423
Target:  5'- -cGUUcgcgCGGCGUGggcGGCCGUCGuCGAuACg -3'
miRNA:   3'- uaCAG----GCCGUAC---CCGGCAGC-GCUuUG- -5'
24311 3' -57.6 NC_005263.2 + 25869 0.68 0.427463
Target:  5'- cGUGUUCGGCGUcgcaaccGGGCCGaCGcCGGcGACg -3'
miRNA:   3'- -UACAGGCCGUA-------CCCGGCaGC-GCU-UUG- -5'
24311 3' -57.6 NC_005263.2 + 31330 0.68 0.409472
Target:  5'- -cGUCCGGCGauacgccgGcGGCCGUCagGCGcGACu -3'
miRNA:   3'- uaCAGGCCGUa-------C-CCGGCAG--CGCuUUG- -5'
24311 3' -57.6 NC_005263.2 + 12703 0.68 0.409472
Target:  5'- uUG-CCGGCGUagGGGCCGUC-CGGcuCg -3'
miRNA:   3'- uACaGGCCGUA--CCCGGCAGcGCUuuG- -5'
24311 3' -57.6 NC_005263.2 + 39717 0.68 0.409472
Target:  5'- aAUGgCCGGCGcGGGCCG-CGuCGAccuGGCg -3'
miRNA:   3'- -UACaGGCCGUaCCCGGCaGC-GCU---UUG- -5'
24311 3' -57.6 NC_005263.2 + 33742 0.68 0.400194
Target:  5'- -gGcCCGGCAUcGGGCCcGUCGUcaacGAAAUc -3'
miRNA:   3'- uaCaGGCCGUA-CCCGG-CAGCG----CUUUG- -5'
24311 3' -57.6 NC_005263.2 + 33908 0.68 0.400194
Target:  5'- ----aCGGCAc--GCCGUCGCGGAACg -3'
miRNA:   3'- uacagGCCGUaccCGGCAGCGCUUUG- -5'
24311 3' -57.6 NC_005263.2 + 44986 0.68 0.382046
Target:  5'- cUGUCCGggaucgaggcgcGCAUGGcGCCGuggcUCGCGAAu- -3'
miRNA:   3'- uACAGGC------------CGUACC-CGGC----AGCGCUUug -5'
24311 3' -57.6 NC_005263.2 + 34032 0.69 0.37318
Target:  5'- -aG-CCGaCAUGGGCCGgCGCGgcGCg -3'
miRNA:   3'- uaCaGGCcGUACCCGGCaGCGCuuUG- -5'
24311 3' -57.6 NC_005263.2 + 8042 0.69 0.37318
Target:  5'- -cGUCCGcGcCGUGGcGCCG-CGCGAGu- -3'
miRNA:   3'- uaCAGGC-C-GUACC-CGGCaGCGCUUug -5'
24311 3' -57.6 NC_005263.2 + 19523 0.69 0.364455
Target:  5'- -cGUCCGGCGaccUGGuGCUGcUUGCGAGcaaGCa -3'
miRNA:   3'- uaCAGGCCGU---ACC-CGGC-AGCGCUU---UG- -5'
24311 3' -57.6 NC_005263.2 + 17125 0.69 0.364455
Target:  5'- -cGUCCGGCcUGGGguuCC-UCGgCGAAGCg -3'
miRNA:   3'- uaCAGGCCGuACCC---GGcAGC-GCUUUG- -5'
24311 3' -57.6 NC_005263.2 + 15250 0.69 0.347432
Target:  5'- cUGUCCGGCuacaugcUGcGGCuUGUCGCGgcGCu -3'
miRNA:   3'- uACAGGCCGu------AC-CCG-GCAGCGCuuUG- -5'
24311 3' -57.6 NC_005263.2 + 35338 0.73 0.182426
Target:  5'- uUGUCCGGUAaucUGGGCCuggucgGUCGUGAGcGCa -3'
miRNA:   3'- uACAGGCCGU---ACCCGG------CAGCGCUU-UG- -5'
24311 3' -57.6 NC_005263.2 + 19163 0.74 0.172767
Target:  5'- --aUCCGaccGCAUGGGCCGUgGCGAGc- -3'
miRNA:   3'- uacAGGC---CGUACCCGGCAgCGCUUug -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.