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
25929 3' -55.7 NC_005337.1 + 103635 0.66 0.911098
Target:  5'- cGCCGCgcgccaUCCUCGgcugCGCGCAGGc---- -3'
miRNA:   3'- -CGGUG------AGGAGCaa--GUGCGUCCaccac -5'
25929 3' -55.7 NC_005337.1 + 51493 0.66 0.904946
Target:  5'- gGCgGCUCCcgUCGUcaaccUCACGCcGGUGuucGUGg -3'
miRNA:   3'- -CGgUGAGG--AGCA-----AGUGCGuCCAC---CAC- -5'
25929 3' -55.7 NC_005337.1 + 47168 0.66 0.904946
Target:  5'- -gCAgUCCUCGgacuUCACGaAGGUGGa- -3'
miRNA:   3'- cgGUgAGGAGCa---AGUGCgUCCACCac -5'
25929 3' -55.7 NC_005337.1 + 104811 0.66 0.898556
Target:  5'- cGCgACUCCgaggaGgaCGCGCAGGaGGUa -3'
miRNA:   3'- -CGgUGAGGag---CaaGUGCGUCCaCCAc -5'
25929 3' -55.7 NC_005337.1 + 9983 0.66 0.898556
Target:  5'- gGCCGCgUCCUCGgcCACgGCAGGg---- -3'
miRNA:   3'- -CGGUG-AGGAGCaaGUG-CGUCCaccac -5'
25929 3' -55.7 NC_005337.1 + 79367 0.66 0.898556
Target:  5'- -gCACgUCCgUGaUCACGgAGGUGGUGu -3'
miRNA:   3'- cgGUG-AGGaGCaAGUGCgUCCACCAC- -5'
25929 3' -55.7 NC_005337.1 + 96869 0.66 0.891932
Target:  5'- cGCgACUCCgcgCGgaUGCGCGGcGUGGa- -3'
miRNA:   3'- -CGgUGAGGa--GCaaGUGCGUC-CACCac -5'
25929 3' -55.7 NC_005337.1 + 33699 0.66 0.891932
Target:  5'- cGCCAcCUCCUCGa------AGGUGGUGg -3'
miRNA:   3'- -CGGU-GAGGAGCaagugcgUCCACCAC- -5'
25929 3' -55.7 NC_005337.1 + 53964 0.66 0.884377
Target:  5'- uGCCGCgaCUCGUUCGCG-GGGcucgucaagcaccUGGUGg -3'
miRNA:   3'- -CGGUGagGAGCAAGUGCgUCC-------------ACCAC- -5'
25929 3' -55.7 NC_005337.1 + 82121 0.66 0.877992
Target:  5'- aCCGCUCCuucUCGUaCACGUAGGaguUGGc- -3'
miRNA:   3'- cGGUGAGG---AGCAaGUGCGUCC---ACCac -5'
25929 3' -55.7 NC_005337.1 + 115316 0.67 0.870686
Target:  5'- cGCCGCUUCUCGUUCuC-CGGGgagcGGa- -3'
miRNA:   3'- -CGGUGAGGAGCAAGuGcGUCCa---CCac -5'
25929 3' -55.7 NC_005337.1 + 3648 0.67 0.863162
Target:  5'- cGCCGCggCCUCGUcgucCGCGCAGucgGGg- -3'
miRNA:   3'- -CGGUGa-GGAGCAa---GUGCGUCca-CCac -5'
25929 3' -55.7 NC_005337.1 + 34805 0.67 0.863162
Target:  5'- gGCCACgaagacgcCCUCGcgCACGCgcgcguccacgAGGUGGc- -3'
miRNA:   3'- -CGGUGa-------GGAGCaaGUGCG-----------UCCACCac -5'
25929 3' -55.7 NC_005337.1 + 57686 0.67 0.863162
Target:  5'- aGCCGUggaCCUCcaccaugaugcaGUUCGCGCcggAGGUGGUGc -3'
miRNA:   3'- -CGGUGa--GGAG------------CAAGUGCG---UCCACCAC- -5'
25929 3' -55.7 NC_005337.1 + 86561 0.67 0.863162
Target:  5'- cCCGCU-CUCGUUCACGUAGGc---- -3'
miRNA:   3'- cGGUGAgGAGCAAGUGCGUCCaccac -5'
25929 3' -55.7 NC_005337.1 + 25194 0.67 0.860093
Target:  5'- aCCACUCCagCGgcaUCGCGCGGGacucgaacucgaaGGUGa -3'
miRNA:   3'- cGGUGAGGa-GCa--AGUGCGUCCa------------CCAC- -5'
25929 3' -55.7 NC_005337.1 + 113884 0.67 0.847487
Target:  5'- aCCACUgcCCUCucUUCACauGCAcGGUGGUGg -3'
miRNA:   3'- cGGUGA--GGAGc-AAGUG--CGU-CCACCAC- -5'
25929 3' -55.7 NC_005337.1 + 100603 0.67 0.839349
Target:  5'- cGCCGg-CCUCGgcgccucgCugGCcaAGGUGGUGu -3'
miRNA:   3'- -CGGUgaGGAGCaa------GugCG--UCCACCAC- -5'
25929 3' -55.7 NC_005337.1 + 97794 0.68 0.831019
Target:  5'- gGCCGCggCCaggcCGUgCG-GCAGGUGGUGa -3'
miRNA:   3'- -CGGUGa-GGa---GCAaGUgCGUCCACCAC- -5'
25929 3' -55.7 NC_005337.1 + 81482 0.68 0.821644
Target:  5'- cGCCgugguggGCUCCgUGUUCACGCGGuUGGa- -3'
miRNA:   3'- -CGG-------UGAGGaGCAAGUGCGUCcACCac -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.