miRNA display CGI


Results 1 - 20 of 96 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
1632 3' -60.1 NC_001347.2 + 722 0.7 0.581137
Target:  5'- --gGcGCCAGCACgcgccguGCACGUCGCuGCCUa -3'
miRNA:   3'- uagC-CGGUCGUG-------UGUGCGGUGuCGGA- -5'
1632 3' -60.1 NC_001347.2 + 1220 0.66 0.766253
Target:  5'- uUUGGCCAacaGCACGgGCCGC-GCCa -3'
miRNA:   3'- uAGCCGGUcg-UGUGUgCGGUGuCGGa -5'
1632 3' -60.1 NC_001347.2 + 1738 0.69 0.64125
Target:  5'- gGUgGGCCGGCACGacggugGCGCUGCAgacGCCg -3'
miRNA:   3'- -UAgCCGGUCGUGUg-----UGCGGUGU---CGGa -5'
1632 3' -60.1 NC_001347.2 + 12341 0.73 0.399454
Target:  5'- -aCGGCgAGCaaauGCGCACGCCGCuGCUa -3'
miRNA:   3'- uaGCCGgUCG----UGUGUGCGGUGuCGGa -5'
1632 3' -60.1 NC_001347.2 + 16066 0.69 0.621491
Target:  5'- -aCGGCCcggcAGCAC-CAUGCCGgAGCUa -3'
miRNA:   3'- uaGCCGG----UCGUGuGUGCGGUgUCGGa -5'
1632 3' -60.1 NC_001347.2 + 17134 0.66 0.793093
Target:  5'- cGUCGGCCGcCGCcCAUGCCAC-GCg- -3'
miRNA:   3'- -UAGCCGGUcGUGuGUGCGGUGuCGga -5'
1632 3' -60.1 NC_001347.2 + 18820 0.67 0.737471
Target:  5'- -cUGGCaCGGCGCacugggcaccaucACACGCuCGCAGCUa -3'
miRNA:   3'- uaGCCG-GUCGUG-------------UGUGCG-GUGUCGGa -5'
1632 3' -60.1 NC_001347.2 + 30568 0.66 0.792216
Target:  5'- uUCGGCUcccGCACACagacgacGCGCCgggcggcuuccuGCGGCCg -3'
miRNA:   3'- uAGCCGGu--CGUGUG-------UGCGG------------UGUCGGa -5'
1632 3' -60.1 NC_001347.2 + 31318 0.67 0.747791
Target:  5'- --aGGUCGGCAC-CGCGCCACcggaaGGaCCUc -3'
miRNA:   3'- uagCCGGUCGUGuGUGCGGUG-----UC-GGA- -5'
1632 3' -60.1 NC_001347.2 + 36770 0.67 0.747791
Target:  5'- -cUGGCaGGgACACGCGCUACguAGCCg -3'
miRNA:   3'- uaGCCGgUCgUGUGUGCGGUG--UCGGa -5'
1632 3' -60.1 NC_001347.2 + 37055 0.67 0.719409
Target:  5'- uUCGGCCgcggaGGUGCugGCgGCCGUGGCCUg -3'
miRNA:   3'- uAGCCGG-----UCGUGugUG-CGGUGUCGGA- -5'
1632 3' -60.1 NC_001347.2 + 37998 0.66 0.766253
Target:  5'- cUCGGgCAGCA-GC-CGCCgcGCGGCCUc -3'
miRNA:   3'- uAGCCgGUCGUgUGuGCGG--UGUCGGA- -5'
1632 3' -60.1 NC_001347.2 + 38462 0.66 0.793093
Target:  5'- -cCGGCCccGC-CGCGCaGCC-CAGCCa -3'
miRNA:   3'- uaGCCGGu-CGuGUGUG-CGGuGUCGGa -5'
1632 3' -60.1 NC_001347.2 + 38491 0.7 0.572341
Target:  5'- -gCGGgCAGCAC-CGCGCCcagcgcCAGCCa -3'
miRNA:   3'- uaGCCgGUCGUGuGUGCGGu-----GUCGGa -5'
1632 3' -60.1 NC_001347.2 + 38676 0.69 0.64125
Target:  5'- cGUCGuGCCGGCcCAC-CGCCggcGCAGCUc -3'
miRNA:   3'- -UAGC-CGGUCGuGUGuGCGG---UGUCGGa -5'
1632 3' -60.1 NC_001347.2 + 39199 0.71 0.486769
Target:  5'- uGUUGGCCAaaaacGC-CGCGCGCCACacggcgcccauGGCCUg -3'
miRNA:   3'- -UAGCCGGU-----CGuGUGUGCGGUG-----------UCGGA- -5'
1632 3' -60.1 NC_001347.2 + 40225 0.73 0.375273
Target:  5'- ---cGCCGGCACACcCGCCACAcGCCc -3'
miRNA:   3'- uagcCGGUCGUGUGuGCGGUGU-CGGa -5'
1632 3' -60.1 NC_001347.2 + 47313 0.67 0.738414
Target:  5'- -aCGGUuuaCAGguCGCACGCCAguCAGCUa -3'
miRNA:   3'- uaGCCG---GUCguGUGUGCGGU--GUCGGa -5'
1632 3' -60.1 NC_001347.2 + 52910 0.67 0.719409
Target:  5'- -aCGccGCCGGUucGCugGCGCCACAcGCCc -3'
miRNA:   3'- uaGC--CGGUCG--UGugUGCGGUGU-CGGa -5'
1632 3' -60.1 NC_001347.2 + 63094 0.67 0.746857
Target:  5'- cUCGGCaAGUGCcgccgugGC-CGCCGCGGCCg -3'
miRNA:   3'- uAGCCGgUCGUG-------UGuGCGGUGUCGGa -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.