miRNA display CGI


Results 1 - 20 of 23 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
7221 5' -57.9 NC_001900.1 + 48393 0.66 0.539509
Target:  5'- uCGGGCGUC-AGAGCaGCuCCAacCGCUUGc -3'
miRNA:   3'- -GCCCGCAGuUCUUG-CG-GGUc-GUGGAC- -5'
7221 5' -57.9 NC_001900.1 + 16887 0.66 0.539509
Target:  5'- -cGGCGUCGGGAucguCGCCaucgccGCGCCg- -3'
miRNA:   3'- gcCCGCAGUUCUu---GCGGgu----CGUGGac -5'
7221 5' -57.9 NC_001900.1 + 44280 0.66 0.52893
Target:  5'- uCGGGgGUUGAguguGAACGCCCcgccguagccGUACCUGu -3'
miRNA:   3'- -GCCCgCAGUU----CUUGCGGGu---------CGUGGAC- -5'
7221 5' -57.9 NC_001900.1 + 46480 0.66 0.525772
Target:  5'- cCGGGCcuugaguucccgccGUCGGGcuACGCCCucAGCGgCUGa -3'
miRNA:   3'- -GCCCG--------------CAGUUCu-UGCGGG--UCGUgGAC- -5'
7221 5' -57.9 NC_001900.1 + 35283 0.66 0.51843
Target:  5'- uGGGCGUUcuuGACGCCCGaCGCCc- -3'
miRNA:   3'- gCCCGCAGuucUUGCGGGUcGUGGac -5'
7221 5' -57.9 NC_001900.1 + 31773 0.66 0.508012
Target:  5'- uGGacaaCGUCAGGAACGCCUGcGUGCCg- -3'
miRNA:   3'- gCCc---GCAGUUCUUGCGGGU-CGUGGac -5'
7221 5' -57.9 NC_001900.1 + 37088 0.67 0.497684
Target:  5'- cCGuGCGUCGAGAuccaGCCCGGagcCACCUu -3'
miRNA:   3'- -GCcCGCAGUUCUug--CGGGUC---GUGGAc -5'
7221 5' -57.9 NC_001900.1 + 16823 0.67 0.467293
Target:  5'- -aGGCGUCGucucAgGUUCAGCACCUGg -3'
miRNA:   3'- gcCCGCAGUucu-UgCGGGUCGUGGAC- -5'
7221 5' -57.9 NC_001900.1 + 48771 0.67 0.467293
Target:  5'- uGGGCcgguuauuacUCAGGAGCGCCCgaaaGGCGCUc- -3'
miRNA:   3'- gCCCGc---------AGUUCUUGCGGG----UCGUGGac -5'
7221 5' -57.9 NC_001900.1 + 2636 0.67 0.457375
Target:  5'- uGGGCGUCGuuaAGcGgGCCaGGUGCCUGc -3'
miRNA:   3'- gCCCGCAGU---UCuUgCGGgUCGUGGAC- -5'
7221 5' -57.9 NC_001900.1 + 6288 0.67 0.457375
Target:  5'- uCGGGCu----GGACGCCUGGCacgACCUGg -3'
miRNA:   3'- -GCCCGcaguuCUUGCGGGUCG---UGGAC- -5'
7221 5' -57.9 NC_001900.1 + 41814 0.69 0.382422
Target:  5'- aGGGCGUCGAuGAugGCUCc-CGCCa- -3'
miRNA:   3'- gCCCGCAGUU-CUugCGGGucGUGGac -5'
7221 5' -57.9 NC_001900.1 + 25048 0.69 0.373642
Target:  5'- gCGGGCuUCGGccGCGCUggUAGCACCUGu -3'
miRNA:   3'- -GCCCGcAGUUcuUGCGG--GUCGUGGAC- -5'
7221 5' -57.9 NC_001900.1 + 31403 0.69 0.373642
Target:  5'- aGGGUGUCGGccagcgugguGAACGCUggcguCAGCGCCg- -3'
miRNA:   3'- gCCCGCAGUU----------CUUGCGG-----GUCGUGGac -5'
7221 5' -57.9 NC_001900.1 + 34945 0.69 0.365001
Target:  5'- gGuGGCGUCuccaAAGAGCGCCCAcCGCUg- -3'
miRNA:   3'- gC-CCGCAG----UUCUUGCGGGUcGUGGac -5'
7221 5' -57.9 NC_001900.1 + 22231 0.69 0.348136
Target:  5'- aCGGGUGgaUCAAGAACgaccgccccgGCCCAGCgaugGCCg- -3'
miRNA:   3'- -GCCCGC--AGUUCUUG----------CGGGUCG----UGGac -5'
7221 5' -57.9 NC_001900.1 + 32010 0.71 0.279255
Target:  5'- uGGGUGUCGAGGAucggcuCGCCguugAGCACCUu -3'
miRNA:   3'- gCCCGCAGUUCUU------GCGGg---UCGUGGAc -5'
7221 5' -57.9 NC_001900.1 + 16239 0.72 0.239649
Target:  5'- gCGGaGCGUCGAGGugGUCagCAGUACCg- -3'
miRNA:   3'- -GCC-CGCAGUUCUugCGG--GUCGUGGac -5'
7221 5' -57.9 NC_001900.1 + 13135 0.75 0.151106
Target:  5'- uGGGUucgcggaggucuccGaCGAGuACGCCCAGCGCCUGa -3'
miRNA:   3'- gCCCG--------------CaGUUCuUGCGGGUCGUGGAC- -5'
7221 5' -57.9 NC_001900.1 + 11002 0.77 0.112359
Target:  5'- uCGGcGCuGUCAAGAACGaCCCAGCuCCUa -3'
miRNA:   3'- -GCC-CG-CAGUUCUUGC-GGGUCGuGGAc -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.