miRNA display CGI


Results 1 - 20 of 21 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
30510 3' -63.5 NC_006548.1 + 5132 0.66 0.25541
Target:  5'- gGUGGGUGagucCGgCGCCGGUaaauccacccUGCGCCGcGa -3'
miRNA:   3'- -CACCCAU----GCgGUGGCCG----------GCGCGGCuC- -5'
30510 3' -63.5 NC_006548.1 + 12495 0.66 0.24291
Target:  5'- gGUGGGUaaaucGCGaCCguaaGCUGGCCucggcauccgGCGCCGAc -3'
miRNA:   3'- -CACCCA-----UGC-GG----UGGCCGG----------CGCGGCUc -5'
30510 3' -63.5 NC_006548.1 + 6294 0.67 0.21944
Target:  5'- --uGGUGCGCCuauGCCGGCUGUGUaCGGc -3'
miRNA:   3'- cacCCAUGCGG---UGGCCGGCGCG-GCUc -5'
30510 3' -63.5 NC_006548.1 + 13278 0.67 0.213883
Target:  5'- cUGGGUGCGCgacuucaaCACCGcCCucgGCGCCGGu -3'
miRNA:   3'- cACCCAUGCG--------GUGGCcGG---CGCGGCUc -5'
30510 3' -63.5 NC_006548.1 + 28252 0.67 0.213883
Target:  5'- cUGGGUACuGCCAUCGGUuaUGCgGCCa-- -3'
miRNA:   3'- cACCCAUG-CGGUGGCCG--GCG-CGGcuc -5'
30510 3' -63.5 NC_006548.1 + 21446 0.67 0.213883
Target:  5'- -cGGGUccgucuacauCGCC-CCGGCCGUucuGCCGGu -3'
miRNA:   3'- caCCCAu---------GCGGuGGCCGGCG---CGGCUc -5'
30510 3' -63.5 NC_006548.1 + 17256 0.67 0.208447
Target:  5'- --cGGUcaGCCaACgGGCCGgGCCGAGg -3'
miRNA:   3'- cacCCAugCGG-UGgCCGGCgCGGCUC- -5'
30510 3' -63.5 NC_006548.1 + 13365 0.67 0.203131
Target:  5'- cUGGcc-CGCCGCCGGUucUGaCGCCGAGc -3'
miRNA:   3'- cACCcauGCGGUGGCCG--GC-GCGGCUC- -5'
30510 3' -63.5 NC_006548.1 + 11754 0.68 0.178288
Target:  5'- cUGGucaUGCGCggCGCgCGGCgGCGCCGGGg -3'
miRNA:   3'- cACCc--AUGCG--GUG-GCCGgCGCGGCUC- -5'
30510 3' -63.5 NC_006548.1 + 23776 0.68 0.169128
Target:  5'- uUGGGUGaucgUGCCAaguUCGGCgGCGCCGc- -3'
miRNA:   3'- cACCCAU----GCGGU---GGCCGgCGCGGCuc -5'
30510 3' -63.5 NC_006548.1 + 32893 0.69 0.149646
Target:  5'- -cGGGUAuCGCacucgaccguuugugCGCCGGCCGCGgUGAc -3'
miRNA:   3'- caCCCAU-GCG---------------GUGGCCGGCGCgGCUc -5'
30510 3' -63.5 NC_006548.1 + 33945 0.69 0.139182
Target:  5'- --cGGUcauGCGCCguccaucgucgcucACCGGCCGCGCgCGAa -3'
miRNA:   3'- cacCCA---UGCGG--------------UGGCCGGCGCG-GCUc -5'
30510 3' -63.5 NC_006548.1 + 21125 0.7 0.119266
Target:  5'- uGUGGGUAacgGCC-UCGGUCGUGCUGAu -3'
miRNA:   3'- -CACCCAUg--CGGuGGCCGGCGCGGCUc -5'
30510 3' -63.5 NC_006548.1 + 1185 0.71 0.10119
Target:  5'- -cGGGUucACGCCaggaGCCGGCUGCaaaGCCGGu -3'
miRNA:   3'- caCCCA--UGCGG----UGGCCGGCG---CGGCUc -5'
30510 3' -63.5 NC_006548.1 + 17135 0.71 0.10119
Target:  5'- cUGGGUAcuCGCCACCuGGCCGaGcCCGAc -3'
miRNA:   3'- cACCCAU--GCGGUGG-CCGGCgC-GGCUc -5'
30510 3' -63.5 NC_006548.1 + 33047 0.72 0.095761
Target:  5'- -gGGGUACaagcgggaGCCgGCCGGCCaGCGCCGc- -3'
miRNA:   3'- caCCCAUG--------CGG-UGGCCGG-CGCGGCuc -5'
30510 3' -63.5 NC_006548.1 + 2007 0.72 0.090608
Target:  5'- -gGGGUAUGCCGCgGGCaagCGCGCgCGGc -3'
miRNA:   3'- caCCCAUGCGGUGgCCG---GCGCG-GCUc -5'
30510 3' -63.5 NC_006548.1 + 23868 0.73 0.074574
Target:  5'- -cGGGUcGCGCCACCGGCaUG-GCCGGc -3'
miRNA:   3'- caCCCA-UGCGGUGGCCG-GCgCGGCUc -5'
30510 3' -63.5 NC_006548.1 + 35943 0.76 0.047523
Target:  5'- -----cACGCCGCCGGCCGCGCgGAu -3'
miRNA:   3'- cacccaUGCGGUGGCCGGCGCGgCUc -5'
30510 3' -63.5 NC_006548.1 + 28607 0.78 0.031898
Target:  5'- -cGGGUaGCGCCGCgaccUGGCCgGCGCCGAGc -3'
miRNA:   3'- caCCCA-UGCGGUG----GCCGG-CGCGGCUC- -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.