miRNA display CGI


Results 1 - 20 of 28 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
30755 3' -58.1 NC_006552.1 + 34384 1.08 0.00051
Target:  5'- cGCGCCAGUGCAGCAGCCUGCCAACUAc -3'
miRNA:   3'- -CGCGGUCACGUCGUCGGACGGUUGAU- -5'
30755 3' -58.1 NC_006552.1 + 10839 0.76 0.132471
Target:  5'- uCGCCGG-GCuGCGGCgCUGCCGACUc -3'
miRNA:   3'- cGCGGUCaCGuCGUCG-GACGGUUGAu -5'
30755 3' -58.1 NC_006552.1 + 61979 0.74 0.165019
Target:  5'- uGCGCCGcuGUGCAGCAGCgagGCCgAACUc -3'
miRNA:   3'- -CGCGGU--CACGUCGUCGga-CGG-UUGAu -5'
30755 3' -58.1 NC_006552.1 + 32030 0.73 0.201342
Target:  5'- aGCGCCAugucagccaggggcGUGCGGUAGCCcuccacgcgcagaaUGCCAGCc- -3'
miRNA:   3'- -CGCGGU--------------CACGUCGUCGG--------------ACGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 2063 0.73 0.210059
Target:  5'- cGCGCCGgcgucGUGC-GCGGCCUGCUGAUc- -3'
miRNA:   3'- -CGCGGU-----CACGuCGUCGGACGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 26191 0.72 0.252084
Target:  5'- cGCGCCAGUagGcCAGguGCUUGCCGGu-- -3'
miRNA:   3'- -CGCGGUCA--C-GUCguCGGACGGUUgau -5'
30755 3' -58.1 NC_006552.1 + 51871 0.71 0.279075
Target:  5'- aGCGCCAGcgGCAGgAGUUggaaGCCAGCa- -3'
miRNA:   3'- -CGCGGUCa-CGUCgUCGGa---CGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 33537 0.7 0.323793
Target:  5'- gGUGCgCAGgcgcGCAGCGGCCgacagcagcagGCCAGCg- -3'
miRNA:   3'- -CGCG-GUCa---CGUCGUCGGa----------CGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 8430 0.7 0.33984
Target:  5'- cGCGCCAGgcgcGCAGCAGUCccucgggaaucuUGCCcuGCUu -3'
miRNA:   3'- -CGCGGUCa---CGUCGUCGG------------ACGGu-UGAu -5'
30755 3' -58.1 NC_006552.1 + 49172 0.69 0.348077
Target:  5'- gGCuGCCcGcacUGCGGCGGCCUGguCCGGCUGg -3'
miRNA:   3'- -CG-CGGuC---ACGUCGUCGGAC--GGUUGAU- -5'
30755 3' -58.1 NC_006552.1 + 44365 0.69 0.356456
Target:  5'- uCGUCAGUGcCAGCAGCCgGUCGGa-- -3'
miRNA:   3'- cGCGGUCAC-GUCGUCGGaCGGUUgau -5'
30755 3' -58.1 NC_006552.1 + 30579 0.69 0.364118
Target:  5'- aGCGCCGGgauugGUAGCAGCgucgcacuaucauCgguacucgGCCAGCUAg -3'
miRNA:   3'- -CGCGGUCa----CGUCGUCG-------------Ga-------CGGUUGAU- -5'
30755 3' -58.1 NC_006552.1 + 28580 0.68 0.428432
Target:  5'- cGCGCCGuUGUAGaCGGCaUGCCAAUUc -3'
miRNA:   3'- -CGCGGUcACGUC-GUCGgACGGUUGAu -5'
30755 3' -58.1 NC_006552.1 + 26291 0.68 0.438018
Target:  5'- cGCGcCCAGcggGUAGUcGCCgGCCAACa- -3'
miRNA:   3'- -CGC-GGUCa--CGUCGuCGGaCGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 15020 0.67 0.457551
Target:  5'- gGCGCCAGUGgcuuCAGCAcGCggggCUGCgCAGCa- -3'
miRNA:   3'- -CGCGGUCAC----GUCGU-CG----GACG-GUUGau -5'
30755 3' -58.1 NC_006552.1 + 15467 0.67 0.48159
Target:  5'- gGCGCCAgcgauacagccgguuGUGCGGCuugcGCCUGCUg---- -3'
miRNA:   3'- -CGCGGU---------------CACGUCGu---CGGACGGuugau -5'
30755 3' -58.1 NC_006552.1 + 16020 0.67 0.487696
Target:  5'- uGCGCCAcUGUccaCGGCCUGCgCAGCa- -3'
miRNA:   3'- -CGCGGUcACGuc-GUCGGACG-GUUGau -5'
30755 3' -58.1 NC_006552.1 + 9400 0.67 0.497952
Target:  5'- uCGCCccGUGCGGCGcGCUucaUGCCAGCc- -3'
miRNA:   3'- cGCGGu-CACGUCGU-CGG---ACGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 3569 0.66 0.518745
Target:  5'- aCGCCAgGUGCuGGCcgAGCC-GCCGGCg- -3'
miRNA:   3'- cGCGGU-CACG-UCG--UCGGaCGGUUGau -5'
30755 3' -58.1 NC_006552.1 + 16794 0.66 0.518745
Target:  5'- cGCGCCGGcUGCcacAGguGCCaacgcuggaGCCAGCg- -3'
miRNA:   3'- -CGCGGUC-ACG---UCguCGGa--------CGGUUGau -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.