miRNA display CGI


Results 1 - 20 of 41 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
2037 5' -57.3 NC_001347.2 + 298 0.66 0.92261
Target:  5'- cCGCGGUCCCcagGGCCGucgucccucgcccCCGGgcGUUGCu -3'
miRNA:   3'- aGUGUCGGGG---CCGGC-------------GGCUauCAAUG- -5'
2037 5' -57.3 NC_001347.2 + 2090 0.69 0.776111
Target:  5'- cCGCAGCCguaCGgcGCCGCCGGcGGggGCg -3'
miRNA:   3'- aGUGUCGGg--GC--CGGCGGCUaUCaaUG- -5'
2037 5' -57.3 NC_001347.2 + 4590 0.67 0.893786
Target:  5'- gUCGgAGCCCCGauacauGCUGCCGAcAGguaagaUGCg -3'
miRNA:   3'- -AGUgUCGGGGC------CGGCGGCUaUCa-----AUG- -5'
2037 5' -57.3 NC_001347.2 + 6139 0.66 0.928346
Target:  5'- gUCACcGCUacuCUGGCCGCUGcUAGUgcUACu -3'
miRNA:   3'- -AGUGuCGG---GGCCGGCGGCuAUCA--AUG- -5'
2037 5' -57.3 NC_001347.2 + 13529 0.74 0.514634
Target:  5'- -gGCGGCCCgGGCCGCCGugcUGGa--- -3'
miRNA:   3'- agUGUCGGGgCCGGCGGCu--AUCaaug -5'
2037 5' -57.3 NC_001347.2 + 24236 0.67 0.893786
Target:  5'- aUAUAGCCuCCGGCUGUC-AUGGgucUGCg -3'
miRNA:   3'- aGUGUCGG-GGCCGGCGGcUAUCa--AUG- -5'
2037 5' -57.3 NC_001347.2 + 28995 0.83 0.155179
Target:  5'- cUCugGGCCCCGGUCGCgGGUAGUaUGCc -3'
miRNA:   3'- -AGugUCGGGGCCGGCGgCUAUCA-AUG- -5'
2037 5' -57.3 NC_001347.2 + 31137 0.66 0.917715
Target:  5'- -gGCuGCCCUGGuuGCCGcugcgGGUaACg -3'
miRNA:   3'- agUGuCGGGGCCggCGGCua---UCAaUG- -5'
2037 5' -57.3 NC_001347.2 + 31411 0.67 0.893786
Target:  5'- cUCGuCGGCCUgGGCUGCUGuugGGUaACg -3'
miRNA:   3'- -AGU-GUCGGGgCCGGCGGCua-UCAaUG- -5'
2037 5' -57.3 NC_001347.2 + 34689 0.68 0.827836
Target:  5'- cUCGguGCCCCGGCCcCUGGaugUGGUg-- -3'
miRNA:   3'- -AGUguCGGGGCCGGcGGCU---AUCAaug -5'
2037 5' -57.3 NC_001347.2 + 38015 0.67 0.900098
Target:  5'- gCGCGGCCUCGGCggcgggCGCCGAc------ -3'
miRNA:   3'- aGUGUCGGGGCCG------GCGGCUaucaaug -5'
2037 5' -57.3 NC_001347.2 + 38186 0.68 0.859084
Target:  5'- gCACGGuCCCCGacGCCGCCGGa------ -3'
miRNA:   3'- aGUGUC-GGGGC--CGGCGGCUaucaaug -5'
2037 5' -57.3 NC_001347.2 + 40612 0.66 0.917715
Target:  5'- ---uGGCCgCCGGCgaUGCCGGgguGUUGCg -3'
miRNA:   3'- agugUCGG-GGCCG--GCGGCUau-CAAUG- -5'
2037 5' -57.3 NC_001347.2 + 41401 0.68 0.843821
Target:  5'- cUCGgAGgCCaCGGCCGCCGuguacAGUUAg -3'
miRNA:   3'- -AGUgUCgGG-GCCGGCGGCua---UCAAUg -5'
2037 5' -57.3 NC_001347.2 + 53734 0.73 0.552006
Target:  5'- gUCACAGCCgCGuGCCGCgGGUGcgcgcagaagaauGUUGCg -3'
miRNA:   3'- -AGUGUCGGgGC-CGGCGgCUAU-------------CAAUG- -5'
2037 5' -57.3 NC_001347.2 + 63209 0.66 0.923143
Target:  5'- aC-CAGCCaccaCCGGCCGCUGAcgcUGuUUACg -3'
miRNA:   3'- aGuGUCGG----GGCCGGCGGCU---AUcAAUG- -5'
2037 5' -57.3 NC_001347.2 + 92254 0.69 0.785081
Target:  5'- cCGCAgGCCgUGGCCGCCGccaugAGgcGCg -3'
miRNA:   3'- aGUGU-CGGgGCCGGCGGCua---UCaaUG- -5'
2037 5' -57.3 NC_001347.2 + 96916 0.67 0.880522
Target:  5'- aCAaAGCCCgGGCCGCCGccAGc--- -3'
miRNA:   3'- aGUgUCGGGgCCGGCGGCuaUCaaug -5'
2037 5' -57.3 NC_001347.2 + 98199 0.67 0.873578
Target:  5'- aCACAgGCCCgauguggcugCGGCCGCCGAg------ -3'
miRNA:   3'- aGUGU-CGGG----------GCCGGCGGCUaucaaug -5'
2037 5' -57.3 NC_001347.2 + 113178 0.72 0.621799
Target:  5'- aCGCGcGCCCCaGCCGCCGGcgUGGcgGCc -3'
miRNA:   3'- aGUGU-CGGGGcCGGCGGCU--AUCaaUG- -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.