miRNA display CGI


Results 1 - 20 of 23 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
12180 3' -61.6 NC_003309.1 + 46542 1.12 0.000162
Target:  5'- uUCCCCUGCUCGUCGGCCAACCGCGCCa -3'
miRNA:   3'- -AGGGGACGAGCAGCCGGUUGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 22364 0.78 0.05698
Target:  5'- --gCCUGCUCGUCGGCaAGCCgauguGCGCCg -3'
miRNA:   3'- aggGGACGAGCAGCCGgUUGG-----CGCGG- -5'
12180 3' -61.6 NC_003309.1 + 6523 0.77 0.067284
Target:  5'- -gCCUUGCUC-UCGGCCGcuuGCCGCGCg -3'
miRNA:   3'- agGGGACGAGcAGCCGGU---UGGCGCGg -5'
12180 3' -61.6 NC_003309.1 + 22510 0.72 0.163934
Target:  5'- cUCUCCUucgugGUUCGUUGGUCGACgGCgGCCa -3'
miRNA:   3'- -AGGGGA-----CGAGCAGCCGGUUGgCG-CGG- -5'
12180 3' -61.6 NC_003309.1 + 11514 0.71 0.177243
Target:  5'- gCCCUUcugcgacgcgagGCUCGcCGuGUCGAUCGCGCCg -3'
miRNA:   3'- aGGGGA------------CGAGCaGC-CGGUUGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 41800 0.7 0.20676
Target:  5'- gUCgCCUGCUCGauaGGCCAGCCGaacgGUa -3'
miRNA:   3'- -AGgGGACGAGCag-CCGGUUGGCg---CGg -5'
12180 3' -61.6 NC_003309.1 + 37771 0.7 0.223057
Target:  5'- aUCaCCCUGCUCGcCGuGCCGuUCGUGUg -3'
miRNA:   3'- -AG-GGGACGAGCaGC-CGGUuGGCGCGg -5'
12180 3' -61.6 NC_003309.1 + 15520 0.69 0.271887
Target:  5'- cUCUUCUGCUCGaUCcGCCAcuGCUGCGgCg -3'
miRNA:   3'- -AGGGGACGAGC-AGcCGGU--UGGCGCgG- -5'
12180 3' -61.6 NC_003309.1 + 43707 0.68 0.306562
Target:  5'- --gCgUGCcaUCGUCGGCUAGCagcgcgCGCGCCa -3'
miRNA:   3'- aggGgACG--AGCAGCCGGUUG------GCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 4167 0.68 0.313891
Target:  5'- gUCCgCCaGCUCGaaCGcGCCggUCGCGCUc -3'
miRNA:   3'- -AGG-GGaCGAGCa-GC-CGGuuGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 16814 0.68 0.313891
Target:  5'- gCUCgaGCUCGUCcucGCCGagAUUGCGCCg -3'
miRNA:   3'- aGGGgaCGAGCAGc--CGGU--UGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 10006 0.68 0.321352
Target:  5'- uUUCCCU-CU--UCGGCCAucgacuugaGCUGCGCCg -3'
miRNA:   3'- -AGGGGAcGAgcAGCCGGU---------UGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 15345 0.67 0.336668
Target:  5'- gUCCCCcacccGCagCGUCGGCgAuggcuGCUGCGCg -3'
miRNA:   3'- -AGGGGa----CGa-GCAGCCGgU-----UGGCGCGg -5'
12180 3' -61.6 NC_003309.1 + 14812 0.67 0.360627
Target:  5'- gCCCC-GCUUacc-GCgCAGCCGCGCCa -3'
miRNA:   3'- aGGGGaCGAGcagcCG-GUUGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 47610 0.67 0.360627
Target:  5'- -gUCCUGCc---CGGUCGucGCCGCGCCg -3'
miRNA:   3'- agGGGACGagcaGCCGGU--UGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 10901 0.67 0.360627
Target:  5'- gCCCCgccGCggUCG-CGGUC-GCCGCGCg -3'
miRNA:   3'- aGGGGa--CG--AGCaGCCGGuUGGCGCGg -5'
12180 3' -61.6 NC_003309.1 + 50047 0.67 0.368042
Target:  5'- gCCCaucGCUCGacguccaucagcuUCGuGCgGACCGCGCUc -3'
miRNA:   3'- aGGGga-CGAGC-------------AGC-CGgUUGGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 1049 0.67 0.368873
Target:  5'- aCgCCUGCUUuUCGGUCgu-CGCGCCc -3'
miRNA:   3'- aGgGGACGAGcAGCCGGuugGCGCGG- -5'
12180 3' -61.6 NC_003309.1 + 36022 0.66 0.377247
Target:  5'- -aCgCUGUUUGUCGGCCccaugcacGGCUucaaGCGCCg -3'
miRNA:   3'- agGgGACGAGCAGCCGG--------UUGG----CGCGG- -5'
12180 3' -61.6 NC_003309.1 + 2193 0.66 0.385748
Target:  5'- -aCCCUGCUUGaUCGGgCGcACCaCGUCg -3'
miRNA:   3'- agGGGACGAGC-AGCCgGU-UGGcGCGG- -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.