miRNA display CGI


Results 1 - 18 of 18 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
21243 5' -54.1 NC_004778.3 + 50065 0.66 0.943359
Target:  5'- aGCCAAcuaauGCGCauAGUUCGCg--GGUCa -3'
miRNA:   3'- -CGGUU-----CGCGguUCAGGCGaaaCCAGc -5'
21243 5' -54.1 NC_004778.3 + 35060 0.66 0.938603
Target:  5'- gGCCAuGCGCUugcGGUauaacgCCGCUgccgaGGUCGa -3'
miRNA:   3'- -CGGUuCGCGGu--UCA------GGCGAaa---CCAGC- -5'
21243 5' -54.1 NC_004778.3 + 95765 0.66 0.938603
Target:  5'- cGCCGGGCGCUA--UCCGCgc-GG-Ca -3'
miRNA:   3'- -CGGUUCGCGGUucAGGCGaaaCCaGc -5'
21243 5' -54.1 NC_004778.3 + 33349 0.66 0.928342
Target:  5'- gGCCGAGCGCgAAGUCCacaaaguacgGCggcccGUCa -3'
miRNA:   3'- -CGGUUCGCGgUUCAGG----------CGaaac-CAGc -5'
21243 5' -54.1 NC_004778.3 + 12742 0.67 0.91708
Target:  5'- uGCC--GCGCCGAuUCCGCUgucgGG-CGa -3'
miRNA:   3'- -CGGuuCGCGGUUcAGGCGAaa--CCaGC- -5'
21243 5' -54.1 NC_004778.3 + 65889 0.67 0.91708
Target:  5'- cGCCAAaCGCC--GUCUGCaaacgGGUCGa -3'
miRNA:   3'- -CGGUUcGCGGuuCAGGCGaaa--CCAGC- -5'
21243 5' -54.1 NC_004778.3 + 47941 0.67 0.90482
Target:  5'- -aCAgcGGCGCUAAGggcagcgCCGCUUUGuUCGa -3'
miRNA:   3'- cgGU--UCGCGGUUCa------GGCGAAACcAGC- -5'
21243 5' -54.1 NC_004778.3 + 24356 0.67 0.90482
Target:  5'- cGUC-AGCGCCGAccCCGCUUuucUGGUaCGa -3'
miRNA:   3'- -CGGuUCGCGGUUcaGGCGAA---ACCA-GC- -5'
21243 5' -54.1 NC_004778.3 + 24158 0.67 0.90482
Target:  5'- cGUC-AGCGCCGAccCCGCUUuucUGGUaCGa -3'
miRNA:   3'- -CGGuUCGCGGUUcaGGCGAA---ACCA-GC- -5'
21243 5' -54.1 NC_004778.3 + 23960 0.67 0.90482
Target:  5'- cGUC-AGCGCCGAccCCGCUUuucUGGUaCGa -3'
miRNA:   3'- -CGGuUCGCGGUUcaGGCGAA---ACCA-GC- -5'
21243 5' -54.1 NC_004778.3 + 33217 0.68 0.884597
Target:  5'- gGCCGGGCG-CAAGUCCGCa------- -3'
miRNA:   3'- -CGGUUCGCgGUUCAGGCGaaaccagc -5'
21243 5' -54.1 NC_004778.3 + 50877 0.68 0.846285
Target:  5'- gGCCGuGCGCUugcuuAGaUUCGCaUUUGGUCGu -3'
miRNA:   3'- -CGGUuCGCGGu----UC-AGGCG-AAACCAGC- -5'
21243 5' -54.1 NC_004778.3 + 125353 0.7 0.74561
Target:  5'- cGCCGGGCGCCGAccUCGUgaaGGUCa -3'
miRNA:   3'- -CGGUUCGCGGUUcaGGCGaaaCCAGc -5'
21243 5' -54.1 NC_004778.3 + 82673 0.71 0.694912
Target:  5'- gGCgCGGGCGCCAAG-CCGCcaaacacggUUUGGaCGg -3'
miRNA:   3'- -CG-GUUCGCGGUUCaGGCG---------AAACCaGC- -5'
21243 5' -54.1 NC_004778.3 + 109178 0.71 0.69388
Target:  5'- cGCCAAGCuugaacuGCUucGUUCGCUUgcUGGUCu -3'
miRNA:   3'- -CGGUUCG-------CGGuuCAGGCGAA--ACCAGc -5'
21243 5' -54.1 NC_004778.3 + 95400 0.72 0.642833
Target:  5'- cGCCGcGGCGCaccaugccCGAGUCCGCggcgaUUUGGUUGa -3'
miRNA:   3'- -CGGU-UCGCG--------GUUCAGGCG-----AAACCAGC- -5'
21243 5' -54.1 NC_004778.3 + 10682 0.75 0.47645
Target:  5'- cGCCAagcccgacgaugaaGGCGCCAcGGUaCCGCUUgUGGUUGg -3'
miRNA:   3'- -CGGU--------------UCGCGGU-UCA-GGCGAA-ACCAGC- -5'
21243 5' -54.1 NC_004778.3 + 82804 1.12 0.002315
Target:  5'- cGCCAAGCGCCAAGUCCGCUUUGGUCGa -3'
miRNA:   3'- -CGGUUCGCGGUUCAGGCGAAACCAGC- -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.