miRNA display CGI


Results 1 - 20 of 30 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
28041 3' -46.5 NC_005887.1 + 19854 1.11 0.005302
Target:  5'- cCGACGAAAGCCCGAUUAUCGAGAAACc -3'
miRNA:   3'- -GCUGCUUUCGGGCUAAUAGCUCUUUG- -5'
28041 3' -46.5 NC_005887.1 + 15705 0.76 0.627995
Target:  5'- uCGACGAcAGCCCGA---UCGAGGccaugAACg -3'
miRNA:   3'- -GCUGCUuUCGGGCUaauAGCUCU-----UUG- -5'
28041 3' -46.5 NC_005887.1 + 33755 0.74 0.744691
Target:  5'- aCGGCGAGAGCUCGccagcGUCGAacGAAACc -3'
miRNA:   3'- -GCUGCUUUCGGGCuaa--UAGCU--CUUUG- -5'
28041 3' -46.5 NC_005887.1 + 11016 0.73 0.766894
Target:  5'- uCGACGAcGGCCCGGUcggcaCGuGGGACg -3'
miRNA:   3'- -GCUGCUuUCGGGCUAaua--GCuCUUUG- -5'
28041 3' -46.5 NC_005887.1 + 30646 0.73 0.788454
Target:  5'- gCGGCGAAGcgaucuugcgacGCCUGAUcGUCGAGcGACu -3'
miRNA:   3'- -GCUGCUUU------------CGGGCUAaUAGCUCuUUG- -5'
28041 3' -46.5 NC_005887.1 + 39178 0.72 0.829197
Target:  5'- gCGGCagcuGCCCGAacUUGUCGAGgcGCg -3'
miRNA:   3'- -GCUGcuuuCGGGCU--AAUAGCUCuuUG- -5'
28041 3' -46.5 NC_005887.1 + 27669 0.71 0.874638
Target:  5'- gCGACGA--GCCCGAUcGUgCGGGGcAGCg -3'
miRNA:   3'- -GCUGCUuuCGGGCUAaUA-GCUCU-UUG- -5'
28041 3' -46.5 NC_005887.1 + 40471 0.7 0.912839
Target:  5'- cCGGCGucgacGAGCUCGAUUA-CGAGGcguGGCg -3'
miRNA:   3'- -GCUGCu----UUCGGGCUAAUaGCUCU---UUG- -5'
28041 3' -46.5 NC_005887.1 + 30485 0.7 0.912839
Target:  5'- aCGACGAAAGaccgCCGAgcGUCGA-AAACg -3'
miRNA:   3'- -GCUGCUUUCg---GGCUaaUAGCUcUUUG- -5'
28041 3' -46.5 NC_005887.1 + 20867 0.7 0.919539
Target:  5'- gCGGCGAu-GCgaGAUagGUCGAGAAACc -3'
miRNA:   3'- -GCUGCUuuCGggCUAa-UAGCUCUUUG- -5'
28041 3' -46.5 NC_005887.1 + 41683 0.69 0.925919
Target:  5'- gGACGAAGGUagCGAgcugcgCGAGggGCu -3'
miRNA:   3'- gCUGCUUUCGg-GCUaaua--GCUCuuUG- -5'
28041 3' -46.5 NC_005887.1 + 29212 0.69 0.937715
Target:  5'- gCGACGAgacgAGGCCCGGcacgcUCGAGGu-- -3'
miRNA:   3'- -GCUGCU----UUCGGGCUaau--AGCUCUuug -5'
28041 3' -46.5 NC_005887.1 + 4546 0.69 0.937715
Target:  5'- aGGCGAuGAGCaCCGA----CGAGGAACu -3'
miRNA:   3'- gCUGCU-UUCG-GGCUaauaGCUCUUUG- -5'
28041 3' -46.5 NC_005887.1 + 38515 0.69 0.937715
Target:  5'- cCGACGuAGAagcGCCCGAUUGcgaaCGGGAAGg -3'
miRNA:   3'- -GCUGC-UUU---CGGGCUAAUa---GCUCUUUg -5'
28041 3' -46.5 NC_005887.1 + 2184 0.69 0.943133
Target:  5'- uGACGccGGCCgCGGUgAUCGGGcAGCg -3'
miRNA:   3'- gCUGCuuUCGG-GCUAaUAGCUCuUUG- -5'
28041 3' -46.5 NC_005887.1 + 3782 0.68 0.953024
Target:  5'- uCGACGAGGGCCgCGAccgcAUCGuGcaGAACa -3'
miRNA:   3'- -GCUGCUUUCGG-GCUaa--UAGCuC--UUUG- -5'
28041 3' -46.5 NC_005887.1 + 15613 0.68 0.953024
Target:  5'- gGACGAGccgaucgugcGCCCGGUcuaUGUCGAGcuGCc -3'
miRNA:   3'- gCUGCUUu---------CGGGCUA---AUAGCUCuuUG- -5'
28041 3' -46.5 NC_005887.1 + 5072 0.68 0.961685
Target:  5'- gCGACGAcuGCaCCGAcuccCGAGAAAUc -3'
miRNA:   3'- -GCUGCUuuCG-GGCUaauaGCUCUUUG- -5'
28041 3' -46.5 NC_005887.1 + 9321 0.68 0.961685
Target:  5'- cCGACGcacacGUCCGGUaGUCGAuGGGACg -3'
miRNA:   3'- -GCUGCuuu--CGGGCUAaUAGCU-CUUUG- -5'
28041 3' -46.5 NC_005887.1 + 11928 0.68 0.965571
Target:  5'- cCGACGucGGCCUGAUgg-UGGGcGAACu -3'
miRNA:   3'- -GCUGCuuUCGGGCUAauaGCUC-UUUG- -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.