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
10203 3' -64 NC_002665.1 + 96912 0.66 0.466079
Target:  5'- -cGCCUCCCUucCCCUCcCCGGGGUc -3'
miRNA:   3'- guCGGGGGGGuuGGGGGuGGUCUCGc -5'
10203 3' -64 NC_002665.1 + 23976 0.66 0.448115
Target:  5'- cCAGCCCCcaaucuccCCCaAACCCCCAagaccccaacCCAGuGUc -3'
miRNA:   3'- -GUCGGGG--------GGG-UUGGGGGU----------GGUCuCGc -5'
10203 3' -64 NC_002665.1 + 90138 0.66 0.448115
Target:  5'- cCAuCCCCCCCAAaCCCCAaacCCucGAGCc -3'
miRNA:   3'- -GUcGGGGGGGUUgGGGGU---GGu-CUCGc -5'
10203 3' -64 NC_002665.1 + 25060 0.66 0.439277
Target:  5'- aAGCCUCCCgcaCAAUCCCUAcuCCAGAuGCu -3'
miRNA:   3'- gUCGGGGGG---GUUGGGGGU--GGUCU-CGc -5'
10203 3' -64 NC_002665.1 + 72173 0.67 0.421906
Target:  5'- aCAGaauaCCUCCCCGGCCCgCCACUGGAc-- -3'
miRNA:   3'- -GUC----GGGGGGGUUGGG-GGUGGUCUcgc -5'
10203 3' -64 NC_002665.1 + 141 0.67 0.413377
Target:  5'- aCAGCCCUCCaCGGCCCuuCCcCCAcAGUGa -3'
miRNA:   3'- -GUCGGGGGG-GUUGGG--GGuGGUcUCGC- -5'
10203 3' -64 NC_002665.1 + 96320 0.67 0.396642
Target:  5'- cUAGCCUCCCUu-CCCCUuccCCGGGGUc -3'
miRNA:   3'- -GUCGGGGGGGuuGGGGGu--GGUCUCGc -5'
10203 3' -64 NC_002665.1 + 101504 0.67 0.396642
Target:  5'- uGGCUCCCaaAGCUCCUauauggguGCCAGAGCc -3'
miRNA:   3'- gUCGGGGGggUUGGGGG--------UGGUCUCGc -5'
10203 3' -64 NC_002665.1 + 89873 0.67 0.380349
Target:  5'- aAGCCaCuCCCCAACcaagaagacauCCCCACCAcAGCc -3'
miRNA:   3'- gUCGG-G-GGGGUUG-----------GGGGUGGUcUCGc -5'
10203 3' -64 NC_002665.1 + 100253 0.67 0.378745
Target:  5'- gCGGCacagaCCCCCGACagaaucgCCCCAUCAuuccccuGAGCGa -3'
miRNA:   3'- -GUCGg----GGGGGUUG-------GGGGUGGU-------CUCGC- -5'
10203 3' -64 NC_002665.1 + 105000 0.67 0.375549
Target:  5'- gCAGaCCCCCCUcACCCcaugaauaugaugaaCCACCAGAuGaCGg -3'
miRNA:   3'- -GUC-GGGGGGGuUGGG---------------GGUGGUCU-C-GC- -5'
10203 3' -64 NC_002665.1 + 68313 0.68 0.334224
Target:  5'- aAGaCCCaaaCCCCAuagACCCCCGCCGG-GUa -3'
miRNA:   3'- gUC-GGG---GGGGU---UGGGGGUGGUCuCGc -5'
10203 3' -64 NC_002665.1 + 4425 0.68 0.334224
Target:  5'- uCAGCCUCCaCC--CCCCCACCcAGAuccauuGCGa -3'
miRNA:   3'- -GUCGGGGG-GGuuGGGGGUGG-UCU------CGC- -5'
10203 3' -64 NC_002665.1 + 80401 0.69 0.319786
Target:  5'- aCAGCuCCCCCCcACCCCaacaGCCAcaauuAGCu -3'
miRNA:   3'- -GUCG-GGGGGGuUGGGGg---UGGUc----UCGc -5'
10203 3' -64 NC_002665.1 + 43646 0.7 0.260643
Target:  5'- gCAGCaCCCUCCAAUCCCUGCaCGG-GUGa -3'
miRNA:   3'- -GUCG-GGGGGGUUGGGGGUG-GUCuCGC- -5'
10203 3' -64 NC_002665.1 + 17703 0.71 0.215837
Target:  5'- aCAGCgCCCCCAgaaaccauACCCCC-CCAGcacAGCc -3'
miRNA:   3'- -GUCGgGGGGGU--------UGGGGGuGGUC---UCGc -5'
10203 3' -64 NC_002665.1 + 68482 0.73 0.173481
Target:  5'- -uGCCCCCCCAACgCCCAau-GGGCc -3'
miRNA:   3'- guCGGGGGGGUUGgGGGUgguCUCGc -5'
10203 3' -64 NC_002665.1 + 23919 1.07 0.000519
Target:  5'- cCAGCCCCCCCAACCCCCACCAGAGCGc -3'
miRNA:   3'- -GUCGGGGGGGUUGGGGGUGGUCUCGC- -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.