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
21349 3' -57.8 NC_004778.3 + 21084 0.66 0.827487
Target:  5'- gGGCGGCCGGcUGGGCUgCGGcauuaucGCaauGUGCg -3'
miRNA:   3'- -UCGCCGGCU-ACUUGA-GCU-------CGgc-CACG- -5'
21349 3' -57.8 NC_004778.3 + 105462 0.66 0.823267
Target:  5'- cAGCGGCCGAUcccgcgccucggacgGAagcgcgggaauuGgUCGAGUCGcUGCa -3'
miRNA:   3'- -UCGCCGGCUA---------------CU------------UgAGCUCGGCcACG- -5'
21349 3' -57.8 NC_004778.3 + 75304 0.66 0.819861
Target:  5'- uGCGGCCaGUGAGCcCGccCCGGcgGCc -3'
miRNA:   3'- uCGCCGGcUACUUGaGCucGGCCa-CG- -5'
21349 3' -57.8 NC_004778.3 + 40051 0.66 0.811227
Target:  5'- --gGGCCGAucguUGAACgcgaCGAGCaacgaGGUGUc -3'
miRNA:   3'- ucgCCGGCU----ACUUGa---GCUCGg----CCACG- -5'
21349 3' -57.8 NC_004778.3 + 64167 0.66 0.802433
Target:  5'- cGUGGCCGccGAGCUUGAcGCguucgUGGUGa -3'
miRNA:   3'- uCGCCGGCuaCUUGAGCU-CG-----GCCACg -5'
21349 3' -57.8 NC_004778.3 + 43145 0.67 0.775168
Target:  5'- cGGCGcGCCGcacguuuuUGAACgCGGGuUUGGUGCa -3'
miRNA:   3'- -UCGC-CGGCu-------ACUUGaGCUC-GGCCACG- -5'
21349 3' -57.8 NC_004778.3 + 25220 0.67 0.775168
Target:  5'- uGCGGCgcccauuuuUGAUGAucgCGAGCCGG-GUc -3'
miRNA:   3'- uCGCCG---------GCUACUugaGCUCGGCCaCG- -5'
21349 3' -57.8 NC_004778.3 + 7588 0.67 0.775168
Target:  5'- cGGCGGCUGGUGGAgUgGcGCCGacaaGCa -3'
miRNA:   3'- -UCGCCGGCUACUUgAgCuCGGCca--CG- -5'
21349 3' -57.8 NC_004778.3 + 35240 0.67 0.765814
Target:  5'- uGCGGCC-----ACUCGuGCCuGUGCa -3'
miRNA:   3'- uCGCCGGcuacuUGAGCuCGGcCACG- -5'
21349 3' -57.8 NC_004778.3 + 10256 0.67 0.756343
Target:  5'- cAGCGcGCCGAUu-GCgcgCGGGaCCGGcgGCg -3'
miRNA:   3'- -UCGC-CGGCUAcuUGa--GCUC-GGCCa-CG- -5'
21349 3' -57.8 NC_004778.3 + 62494 0.67 0.756343
Target:  5'- aAGCGGCCaagcAGCUC-AGCCucgcGGUGCa -3'
miRNA:   3'- -UCGCCGGcuacUUGAGcUCGG----CCACG- -5'
21349 3' -57.8 NC_004778.3 + 96750 0.67 0.746763
Target:  5'- uAGCGGCCGccGcGCUgGcuAGCagGGUGCu -3'
miRNA:   3'- -UCGCCGGCuaCuUGAgC--UCGg-CCACG- -5'
21349 3' -57.8 NC_004778.3 + 95240 0.67 0.737084
Target:  5'- ---cGCCGcgG-ACUCGGGCaUGGUGCg -3'
miRNA:   3'- ucgcCGGCuaCuUGAGCUCG-GCCACG- -5'
21349 3' -57.8 NC_004778.3 + 80654 0.67 0.737084
Target:  5'- gAGCGaGCUGcgcGACUUGGGCUGcGUGCu -3'
miRNA:   3'- -UCGC-CGGCuacUUGAGCUCGGC-CACG- -5'
21349 3' -57.8 NC_004778.3 + 93704 0.67 0.72535
Target:  5'- cGCGGCCGAgcuagucaUCGAcUUGGUGCg -3'
miRNA:   3'- uCGCCGGCUacuug---AGCUcGGCCACG- -5'
21349 3' -57.8 NC_004778.3 + 117987 0.68 0.687511
Target:  5'- gGGuuGCuUGAUGAACUCGuugucgucgucGCUGGUGCg -3'
miRNA:   3'- -UCgcCG-GCUACUUGAGCu----------CGGCCACG- -5'
21349 3' -57.8 NC_004778.3 + 14406 0.68 0.677424
Target:  5'- aGGCGGUCGAacagGAugUUGcgaucgcuuuGGCCGG-GCa -3'
miRNA:   3'- -UCGCCGGCUa---CUugAGC----------UCGGCCaCG- -5'
21349 3' -57.8 NC_004778.3 + 2032 0.7 0.605238
Target:  5'- cAGCGGCUGGccaGcACUCGAGCUugaucugcgauaaGGUGUa -3'
miRNA:   3'- -UCGCCGGCUa--CuUGAGCUCGG-------------CCACG- -5'
21349 3' -57.8 NC_004778.3 + 108420 0.7 0.565831
Target:  5'- cGCGGCgcaGGUGGACgc--GCUGGUGCg -3'
miRNA:   3'- uCGCCGg--CUACUUGagcuCGGCCACG- -5'
21349 3' -57.8 NC_004778.3 + 36323 0.71 0.526139
Target:  5'- aAGUGGUCGAUGuaaaUUGAGUCguGGUGCa -3'
miRNA:   3'- -UCGCCGGCUACuug-AGCUCGG--CCACG- -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.