miRNA display CGI


Results 1 - 17 of 17 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
19555 3' -52.9 NC_004686.1 + 48234 0.66 0.839582
Target:  5'- -gGGAAGCCGCuGCCcgGUCGGG-UCa -3'
miRNA:   3'- agCUUUCGGUGuUGGaaCGGCCUgAG- -5'
19555 3' -52.9 NC_004686.1 + 49962 0.66 0.830493
Target:  5'- aUCGuuucGCCGCGGCCUUcgucGCCGGcgAgUCg -3'
miRNA:   3'- -AGCuuu-CGGUGUUGGAA----CGGCC--UgAG- -5'
19555 3' -52.9 NC_004686.1 + 41334 0.66 0.830493
Target:  5'- -aGGAAGCCcgaGACCUcGCCGcuGCUCu -3'
miRNA:   3'- agCUUUCGGug-UUGGAaCGGCc-UGAG- -5'
19555 3' -52.9 NC_004686.1 + 31104 0.66 0.811671
Target:  5'- aUUGAGAaGCUGCGACC--GCUGcGGCUCa -3'
miRNA:   3'- -AGCUUU-CGGUGUUGGaaCGGC-CUGAG- -5'
19555 3' -52.9 NC_004686.1 + 3749 0.66 0.80196
Target:  5'- -aGgcGGCUucCAACUcUGCUGGGCUCa -3'
miRNA:   3'- agCuuUCGGu-GUUGGaACGGCCUGAG- -5'
19555 3' -52.9 NC_004686.1 + 34886 0.66 0.80196
Target:  5'- uUCGAGGGCCACAACg-UGCgGcACg- -3'
miRNA:   3'- -AGCUUUCGGUGUUGgaACGgCcUGag -5'
19555 3' -52.9 NC_004686.1 + 55746 0.67 0.792063
Target:  5'- uUCGAGuaCCACAGCCcaGUCGGugUg -3'
miRNA:   3'- -AGCUUucGGUGUUGGaaCGGCCugAg -5'
19555 3' -52.9 NC_004686.1 + 23612 0.67 0.781992
Target:  5'- aCGAGGGCgACuuuCCaggUGUCGGAgUCg -3'
miRNA:   3'- aGCUUUCGgUGuu-GGa--ACGGCCUgAG- -5'
19555 3' -52.9 NC_004686.1 + 4666 0.68 0.740203
Target:  5'- gCG-AAGCCGCAacgcuuccGCUUUGgCGGugUCc -3'
miRNA:   3'- aGCuUUCGGUGU--------UGGAACgGCCugAG- -5'
19555 3' -52.9 NC_004686.1 + 5637 0.68 0.72944
Target:  5'- gUCGAcgcGGUCACAGCCU--CCGGGC-Cg -3'
miRNA:   3'- -AGCUu--UCGGUGUUGGAacGGCCUGaG- -5'
19555 3' -52.9 NC_004686.1 + 8178 0.68 0.718576
Target:  5'- aUCGAcuGCUACaAGCC-UGCgaaGGGCUCg -3'
miRNA:   3'- -AGCUuuCGGUG-UUGGaACGg--CCUGAG- -5'
19555 3' -52.9 NC_004686.1 + 1157 0.69 0.663155
Target:  5'- cCGu-AGCCACcACCgggUGCUGGGCa- -3'
miRNA:   3'- aGCuuUCGGUGuUGGa--ACGGCCUGag -5'
19555 3' -52.9 NC_004686.1 + 5460 0.7 0.595754
Target:  5'- uUCGcAGGGCCGCAAgCUguacCCGGaACUCg -3'
miRNA:   3'- -AGC-UUUCGGUGUUgGAac--GGCC-UGAG- -5'
19555 3' -52.9 NC_004686.1 + 49829 0.7 0.57344
Target:  5'- aUCGggGcaucGCCAUAACCcgcgugGCCGG-CUCu -3'
miRNA:   3'- -AGCuuU----CGGUGUUGGaa----CGGCCuGAG- -5'
19555 3' -52.9 NC_004686.1 + 33726 0.72 0.501569
Target:  5'- aUGAGAGCCagcagaGCAGCCUUGUcgcgagcagagaguuCGGugUCg -3'
miRNA:   3'- aGCUUUCGG------UGUUGGAACG---------------GCCugAG- -5'
19555 3' -52.9 NC_004686.1 + 3700 0.72 0.485765
Target:  5'- aUCGAGAGCCAguaccguCAAcCCUUGCaGGACg- -3'
miRNA:   3'- -AGCUUUCGGU-------GUU-GGAACGgCCUGag -5'
19555 3' -52.9 NC_004686.1 + 729 1.1 0.001472
Target:  5'- aUCGAAAGCCACAACCUUGCCGGACUCc -3'
miRNA:   3'- -AGCUUUCGGUGUUGGAACGGCCUGAG- -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.