miRNA display CGI


Results 1 - 20 of 43 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
28009 3' -49.5 NC_005887.1 + 1404 0.73 0.601767
Target:  5'- -aGCGGUCGAgcAUGCGcucggCGUUGCCGa -3'
miRNA:   3'- cgCGCUAGCU--UAUGCaaa--GCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 1440 0.71 0.693657
Target:  5'- uGCGCGcgCGGuagcccuucgGCGgcUCGUCGUCAc -3'
miRNA:   3'- -CGCGCuaGCUua--------UGCaaAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 3249 0.66 0.941861
Target:  5'- cGCGcCGcUCGcgcUGCGcaacUUCGUCGCCGc -3'
miRNA:   3'- -CGC-GCuAGCuu-AUGCa---AAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 4056 0.67 0.893755
Target:  5'- -gGCGA-CGGcacccugaccguugcGUGCGaagUCGUCGCCAc -3'
miRNA:   3'- cgCGCUaGCU---------------UAUGCaa-AGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 6031 0.67 0.890746
Target:  5'- ---gGAUCGAGUGCGcggCGUCGaCCGc -3'
miRNA:   3'- cgcgCUAGCUUAUGCaaaGCAGC-GGU- -5'
28009 3' -49.5 NC_005887.1 + 6304 0.66 0.936528
Target:  5'- aGCGCG-UCGAGgccuUGCGccUCGccggCGCCGa -3'
miRNA:   3'- -CGCGCuAGCUU----AUGCaaAGCa---GCGGU- -5'
28009 3' -49.5 NC_005887.1 + 9133 0.66 0.946405
Target:  5'- gGCGCGAcCGAGUgccagugcggcGCGUUcaucuggacgggcUCGUCcgGCCGc -3'
miRNA:   3'- -CGCGCUaGCUUA-----------UGCAA-------------AGCAG--CGGU- -5'
28009 3' -49.5 NC_005887.1 + 10188 0.7 0.791645
Target:  5'- aCGCGAacgguuucgUCGAGUGCGUcgCGUCgauGCCc -3'
miRNA:   3'- cGCGCU---------AGCUUAUGCAaaGCAG---CGGu -5'
28009 3' -49.5 NC_005887.1 + 11179 0.67 0.914822
Target:  5'- aGCuGCGAUCGcAUGgGcugaacaucuaggcUUCGUCGCCGa -3'
miRNA:   3'- -CG-CGCUAGCuUAUgCa-------------AAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 13671 0.66 0.946895
Target:  5'- gGCGUGAUC----GCGggUUGUCGUCu -3'
miRNA:   3'- -CGCGCUAGcuuaUGCaaAGCAGCGGu -5'
28009 3' -49.5 NC_005887.1 + 16190 0.67 0.905324
Target:  5'- cGCGCGAcacgaUCGAcgaggACGUcgUCGagCGCCGc -3'
miRNA:   3'- -CGCGCU-----AGCUua---UGCAa-AGCa-GCGGU- -5'
28009 3' -49.5 NC_005887.1 + 17985 0.7 0.791645
Target:  5'- aGCGCGGcUCGugg----UUCGUCGCCGa -3'
miRNA:   3'- -CGCGCU-AGCuuaugcaAAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 18628 0.66 0.924954
Target:  5'- aGCGCGAUCGGcgGCccgcugcugUCGaCGCUg -3'
miRNA:   3'- -CGCGCUAGCUuaUGcaa------AGCaGCGGu -5'
28009 3' -49.5 NC_005887.1 + 18851 0.66 0.930892
Target:  5'- aGCGCGGcCGAAcACGUcggcaagcagaUcaagggCGUCGCCGg -3'
miRNA:   3'- -CGCGCUaGCUUaUGCA-----------Aa-----GCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 21042 0.67 0.905324
Target:  5'- -gGCGAUCGucucgACaggUUCGUCGUCGg -3'
miRNA:   3'- cgCGCUAGCuua--UGca-AAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 21990 0.71 0.727377
Target:  5'- cGCGCucGUCGggUGCGUUaagCGUC-CCGa -3'
miRNA:   3'- -CGCGc-UAGCuuAUGCAAa--GCAGcGGU- -5'
28009 3' -49.5 NC_005887.1 + 22975 0.67 0.905324
Target:  5'- -aGCGaAUCGAGUuga--UCGUCGCCGc -3'
miRNA:   3'- cgCGC-UAGCUUAugcaaAGCAGCGGU- -5'
28009 3' -49.5 NC_005887.1 + 24767 0.73 0.601767
Target:  5'- cGCGgGAUUGAcggGCGUgUUCGUCGCg- -3'
miRNA:   3'- -CGCgCUAGCUua-UGCA-AAGCAGCGgu -5'
28009 3' -49.5 NC_005887.1 + 25408 0.68 0.875017
Target:  5'- cGCGCGGUUGAAgcgcucACGcaUCG-CGCCc -3'
miRNA:   3'- -CGCGCUAGCUUa-----UGCaaAGCaGCGGu -5'
28009 3' -49.5 NC_005887.1 + 25512 0.74 0.522583
Target:  5'- gGCGCGG-CGggUgGCGgcauaaUCGUCGCCGc -3'
miRNA:   3'- -CGCGCUaGCuuA-UGCaa----AGCAGCGGU- -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.