miRNA display CGI


Results 1 - 20 of 82 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
31009 3' -55.6 NC_006560.1 + 1986 0.68 0.842483
Target:  5'- -cUCGGGGCCGGGccAGCUCcaGGGCggcGGc -3'
miRNA:   3'- gaGGCCCCGGUCU--UUGAG--CUCGaa-CC- -5'
31009 3' -55.6 NC_006560.1 + 3319 0.72 0.653783
Target:  5'- -gCCGcGGGCCGGggGCgCGGGCgggcGGc -3'
miRNA:   3'- gaGGC-CCCGGUCuuUGaGCUCGaa--CC- -5'
31009 3' -55.6 NC_006560.1 + 4545 0.72 0.653783
Target:  5'- -cCCGGGGgCGGggGCUCG-GCcccGGg -3'
miRNA:   3'- gaGGCCCCgGUCuuUGAGCuCGaa-CC- -5'
31009 3' -55.6 NC_006560.1 + 5462 0.66 0.912813
Target:  5'- -cCCGGGGgCGccGggGCUcCGAGCgcGGu -3'
miRNA:   3'- gaGGCCCCgGU--CuuUGA-GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 6539 0.7 0.753437
Target:  5'- cCUCgGGGGCUcggGGGGACggGGGCUcGGg -3'
miRNA:   3'- -GAGgCCCCGG---UCUUUGagCUCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 6579 0.71 0.67413
Target:  5'- gCUCgGGGGCUcggggggacGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCCGG---------UCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 6619 0.78 0.338122
Target:  5'- gCUCgGGGGaCCGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCC-GGUCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 6668 0.73 0.552258
Target:  5'- gCUCgGGGGgaCCGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCC--GGUCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 6703 0.7 0.753437
Target:  5'- -aCCGGGgGCuCGGggGCUCGGGg--GGa -3'
miRNA:   3'- gaGGCCC-CG-GUCuuUGAGCUCgaaCC- -5'
31009 3' -55.6 NC_006560.1 + 6735 0.73 0.552258
Target:  5'- gCUCgGGGGgaCCGGggGCUCGggGGCUcGGg -3'
miRNA:   3'- -GAGgCCCC--GGUCuuUGAGC--UCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 6777 0.75 0.465202
Target:  5'- gCUCgGGGGCuCGGggGCUCGGGg--GGa -3'
miRNA:   3'- -GAGgCCCCG-GUCuuUGAGCUCgaaCC- -5'
31009 3' -55.6 NC_006560.1 + 6803 0.7 0.753437
Target:  5'- -aCCGGGgGCuCGGggGCUCGGGg--GGa -3'
miRNA:   3'- gaGGCCC-CG-GUCuuUGAGCUCgaaCC- -5'
31009 3' -55.6 NC_006560.1 + 12328 0.67 0.880383
Target:  5'- -aUCGGGGaCCGGAGGCaccUCgGGGCUggcgGGg -3'
miRNA:   3'- gaGGCCCC-GGUCUUUG---AG-CUCGAa---CC- -5'
31009 3' -55.6 NC_006560.1 + 14811 0.69 0.808706
Target:  5'- gCUCgGGGGCCGGAGGgUC-AGCg--- -3'
miRNA:   3'- -GAGgCCCCGGUCUUUgAGcUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 15462 0.71 0.67413
Target:  5'- -gCCcGGGCCAGggGCUCGucCUccUGGg -3'
miRNA:   3'- gaGGcCCCGGUCuuUGAGCucGA--ACC- -5'
31009 3' -55.6 NC_006560.1 + 15772 0.67 0.900531
Target:  5'- aCUCCGGGcCCGGggGC-CG-GCagGGc -3'
miRNA:   3'- -GAGGCCCcGGUCuuUGaGCuCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 17472 0.66 0.912813
Target:  5'- cCUCCGGGgugaguccGCCGGGggggguggGGCUgGAGCgcgcgGGg -3'
miRNA:   3'- -GAGGCCC--------CGGUCU--------UUGAgCUCGaa---CC- -5'
31009 3' -55.6 NC_006560.1 + 19553 0.66 0.918601
Target:  5'- cCUCCGGcGGCCccccGGAGGCggcacCGGGCg--- -3'
miRNA:   3'- -GAGGCC-CCGG----UCUUUGa----GCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 26389 0.68 0.858259
Target:  5'- -gCCGGGGCgCAGggGCgcgccccCGGGCg--- -3'
miRNA:   3'- gaGGCCCCG-GUCuuUGa------GCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 27205 0.66 0.924151
Target:  5'- --gCGGGGCCGGGAccGCg-GGGCggGGc -3'
miRNA:   3'- gagGCCCCGGUCUU--UGagCUCGaaCC- -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.