miRNA display CGI


Results 1 - 16 of 16 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
33059 3' -61.9 NC_007497.1 + 36190 0.66 0.348799
Target:  5'- --cGACCGgaggaugcguggGCUgGCGUCGaCGGCCGg -3'
miRNA:   3'- cgaCUGGCa-----------CGGgCGUAGCgGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 3943 0.66 0.341542
Target:  5'- cGUUcuUCGUGCCgGCGUCGacccgcaUCGGCCAa -3'
miRNA:   3'- -CGAcuGGCACGGgCGUAGC-------GGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 15238 0.66 0.326583
Target:  5'- cGCgc-CUGUGgcgcauCCCGCGgaCGCCGGCCGa -3'
miRNA:   3'- -CGacuGGCAC------GGGCGUa-GCGGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 4299 0.66 0.324266
Target:  5'- gGCUGGCUuuuGUGCCCGguccgauuguucugCGCCucGGCCAu -3'
miRNA:   3'- -CGACUGG---CACGGGCgua-----------GCGG--CCGGU- -5'
33059 3' -61.9 NC_007497.1 + 14444 0.66 0.311368
Target:  5'- --cGACgGcgGCCCgGCAUUcCCGGCCAc -3'
miRNA:   3'- cgaCUGgCa-CGGG-CGUAGcGGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 42380 0.67 0.303964
Target:  5'- cGC-GAcCCGUGCCaccauucaGC-UCGCCGcGCCGg -3'
miRNA:   3'- -CGaCU-GGCACGGg-------CGuAGCGGC-CGGU- -5'
33059 3' -61.9 NC_007497.1 + 36385 0.67 0.296697
Target:  5'- cGCUGAUCG-GCgacuCCGCGUCaaacGCCuGCCAc -3'
miRNA:   3'- -CGACUGGCaCG----GGCGUAG----CGGcCGGU- -5'
33059 3' -61.9 NC_007497.1 + 2257 0.68 0.262384
Target:  5'- uGCUauuuGCgCGUGCCCgGUGUCuGCCGGCUg -3'
miRNA:   3'- -CGAc---UG-GCACGGG-CGUAG-CGGCCGGu -5'
33059 3' -61.9 NC_007497.1 + 14288 0.68 0.230781
Target:  5'- aGCUGGCgCaUGCaCUGCGUCGCCagcgagcGGCCc -3'
miRNA:   3'- -CGACUG-GcACG-GGCGUAGCGG-------CCGGu -5'
33059 3' -61.9 NC_007497.1 + 44673 0.69 0.198289
Target:  5'- gGCUGuagccuGCCGcgaUGgCCGCGUCcuuauuggacuuGCCGGCCAa -3'
miRNA:   3'- -CGAC------UGGC---ACgGGCGUAG------------CGGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 23634 0.7 0.183347
Target:  5'- cGCcGGCCGUGaCCCacuGCG--GCCGGCCGu -3'
miRNA:   3'- -CGaCUGGCAC-GGG---CGUagCGGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 867 0.7 0.173947
Target:  5'- uGCUGACCGUGUUcacgugCGCGUCGCaauccucuGCCAc -3'
miRNA:   3'- -CGACUGGCACGG------GCGUAGCGgc------CGGU- -5'
33059 3' -61.9 NC_007497.1 + 23891 0.7 0.164978
Target:  5'- cGCUGGCCG-GCgCGCAcguccuucgugUCGCCauugcaGGCCGu -3'
miRNA:   3'- -CGACUGGCaCGgGCGU-----------AGCGG------CCGGU- -5'
33059 3' -61.9 NC_007497.1 + 39394 0.7 0.164978
Target:  5'- ---aACCGgauaGCCCGCcagcGUCGCCGGCUg -3'
miRNA:   3'- cgacUGGCa---CGGGCG----UAGCGGCCGGu -5'
33059 3' -61.9 NC_007497.1 + 26016 0.72 0.126107
Target:  5'- uGgUGG-CGUcGCCCGCguacucuuccgcGUCGCCGGCCAu -3'
miRNA:   3'- -CgACUgGCA-CGGGCG------------UAGCGGCCGGU- -5'
33059 3' -61.9 NC_007497.1 + 23206 1.1 0.000149
Target:  5'- cGCUGACCGUGCCCGCAUCGCCGGCCAg -3'
miRNA:   3'- -CGACUGGCACGGGCGUAGCGGCCGGU- -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.