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
12480 3' -63.2 NC_003324.1 + 49443 0.66 0.333379
Target:  5'- cGAGGuCGCCcgaucgucgacACCGCuGUUGGCGCCGc -3'
miRNA:   3'- -UUCCcGCGGu----------UGGCG-CAGCCGCGGUc -5'
12480 3' -63.2 NC_003324.1 + 28642 0.66 0.333379
Target:  5'- -cGGGcCGCCuuguCgCGCGUCguGGUGCCAu -3'
miRNA:   3'- uuCCC-GCGGuu--G-GCGCAG--CCGCGGUc -5'
12480 3' -63.2 NC_003324.1 + 18806 0.66 0.325709
Target:  5'- -cGGGU-CCAuggcGCgGCGaaggUCGGCGCCAGu -3'
miRNA:   3'- uuCCCGcGGU----UGgCGC----AGCCGCGGUC- -5'
12480 3' -63.2 NC_003324.1 + 51310 0.66 0.325709
Target:  5'- uAAGGGCGCgGACCa--UCG-CGCCGGa -3'
miRNA:   3'- -UUCCCGCGgUUGGcgcAGCcGCGGUC- -5'
12480 3' -63.2 NC_003324.1 + 26024 0.66 0.325709
Target:  5'- uGAGcGCGCCAAUgGCGUCaccGGUcuGCCGGc -3'
miRNA:   3'- -UUCcCGCGGUUGgCGCAG---CCG--CGGUC- -5'
12480 3' -63.2 NC_003324.1 + 54960 0.66 0.31371
Target:  5'- -cGGGCGCCGACauuCGCGagcauccgggccugCGGgGUCGGa -3'
miRNA:   3'- uuCCCGCGGUUG---GCGCa-------------GCCgCGGUC- -5'
12480 3' -63.2 NC_003324.1 + 19487 0.66 0.296345
Target:  5'- -uGGGCGaua---GCGUCGGCGUCGGc -3'
miRNA:   3'- uuCCCGCgguuggCGCAGCCGCGGUC- -5'
12480 3' -63.2 NC_003324.1 + 17284 0.66 0.295638
Target:  5'- --cGGCGCUcaagaacgccgaaAGCCGCGUCcgacagacGCGCCAGc -3'
miRNA:   3'- uucCCGCGG-------------UUGGCGCAGc-------CGCGGUC- -5'
12480 3' -63.2 NC_003324.1 + 31118 0.67 0.289333
Target:  5'- cAGGaguugaaCGCCGACCGCGcCGGuCGCUAc -3'
miRNA:   3'- uUCCc------GCGGUUGGCGCaGCC-GCGGUc -5'
12480 3' -63.2 NC_003324.1 + 48687 0.67 0.282452
Target:  5'- -cGGGCGCCGACCuGCGugucgauuggguUCGGCuucuUCGGg -3'
miRNA:   3'- uuCCCGCGGUUGG-CGC------------AGCCGc---GGUC- -5'
12480 3' -63.2 NC_003324.1 + 4938 0.68 0.237887
Target:  5'- cAGGGCucgaCCGGCCGCaacguuguuGcCGGCGCCAu -3'
miRNA:   3'- uUCCCGc---GGUUGGCG---------CaGCCGCGGUc -5'
12480 3' -63.2 NC_003324.1 + 29955 0.68 0.226283
Target:  5'- gAGGGGCGUC--CUGCGUagcggCGGCaGCCGGg -3'
miRNA:   3'- -UUCCCGCGGuuGGCGCA-----GCCG-CGGUC- -5'
12480 3' -63.2 NC_003324.1 + 3419 0.68 0.226283
Target:  5'- gAAGGGaGCC-ACUGCaGUCGGCGaCCGu -3'
miRNA:   3'- -UUCCCgCGGuUGGCG-CAGCCGC-GGUc -5'
12480 3' -63.2 NC_003324.1 + 20514 0.68 0.215161
Target:  5'- cGAGGGCgugcccGCCGACCGCaagcgcccaUCaGCGCCGGc -3'
miRNA:   3'- -UUCCCG------CGGUUGGCGc--------AGcCGCGGUC- -5'
12480 3' -63.2 NC_003324.1 + 5421 0.69 0.209778
Target:  5'- cGGGGCGCCGuuggugUCGagauCGUCGGCGUCGa -3'
miRNA:   3'- uUCCCGCGGUu-----GGC----GCAGCCGCGGUc -5'
12480 3' -63.2 NC_003324.1 + 13172 0.69 0.204512
Target:  5'- cGAGGcuGCGUCGGCgGCgGUCGGCGgCGGc -3'
miRNA:   3'- -UUCC--CGCGGUUGgCG-CAGCCGCgGUC- -5'
12480 3' -63.2 NC_003324.1 + 38073 0.69 0.194323
Target:  5'- -cGGuacuGCGCCuucuggcgAAgCGCGUCGGCGCCGu -3'
miRNA:   3'- uuCC----CGCGG--------UUgGCGCAGCCGCGGUc -5'
12480 3' -63.2 NC_003324.1 + 21094 0.69 0.189396
Target:  5'- --cGGCGCguGCUGCGUCGGCuuccacGUCGGg -3'
miRNA:   3'- uucCCGCGguUGGCGCAGCCG------CGGUC- -5'
12480 3' -63.2 NC_003324.1 + 48803 0.7 0.175271
Target:  5'- --uGGCGCCGACgCG-GUUGGCGCCc- -3'
miRNA:   3'- uucCCGCGGUUG-GCgCAGCCGCGGuc -5'
12480 3' -63.2 NC_003324.1 + 31856 0.7 0.175271
Target:  5'- -cGGGCccgaagagGCCGGCagGCGUUGGCGCCc- -3'
miRNA:   3'- uuCCCG--------CGGUUGg-CGCAGCCGCGGuc -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.