miRNA display CGI


Results 1 - 20 of 26 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
16408 3' -57.2 NC_004084.1 + 43951 0.66 0.659072
Target:  5'- gCUCAGgaGGCGGCCugggagGGCGAGGgaaCGa -3'
miRNA:   3'- aGAGUCagCCGCUGG------CCGCUUCa--GCa -5'
16408 3' -57.2 NC_004084.1 + 13252 0.66 0.64835
Target:  5'- aCUCAccgucGUCGG-GAUCgauGGUGAAGUCGUu -3'
miRNA:   3'- aGAGU-----CAGCCgCUGG---CCGCUUCAGCA- -5'
16408 3' -57.2 NC_004084.1 + 54233 0.66 0.64835
Target:  5'- aUCUCGacGUCGgaGCGAucagcgccgUCGGCGAGGUUGa -3'
miRNA:   3'- -AGAGU--CAGC--CGCU---------GGCCGCUUCAGCa -5'
16408 3' -57.2 NC_004084.1 + 51240 0.66 0.626872
Target:  5'- cUCUCGGUacugauaGGCGGCuucgucagCGGCGAAcgcuguGUCGUc -3'
miRNA:   3'- -AGAGUCAg------CCGCUG--------GCCGCUU------CAGCA- -5'
16408 3' -57.2 NC_004084.1 + 35455 0.67 0.605412
Target:  5'- aCUCGGUCGGCc-UCGucGCGAGuGUCGUg -3'
miRNA:   3'- aGAGUCAGCCGcuGGC--CGCUU-CAGCA- -5'
16408 3' -57.2 NC_004084.1 + 53491 0.67 0.594711
Target:  5'- aUC-CAGUaCGuCGA-CGGCGAAGUCGUc -3'
miRNA:   3'- -AGaGUCA-GCcGCUgGCCGCUUCAGCA- -5'
16408 3' -57.2 NC_004084.1 + 30580 0.67 0.594711
Target:  5'- --aCGGUCGGCGaACCGgaGCGggGUg-- -3'
miRNA:   3'- agaGUCAGCCGC-UGGC--CGCuuCAgca -5'
16408 3' -57.2 NC_004084.1 + 39841 0.67 0.573407
Target:  5'- gCUCgAGuccaUCGGCGGCCgcGGCGccGUCGa -3'
miRNA:   3'- aGAG-UC----AGCCGCUGG--CCGCuuCAGCa -5'
16408 3' -57.2 NC_004084.1 + 29136 0.67 0.573407
Target:  5'- cCUCGgcgguGUCGGCGguGCUGGUGuGGUCGc -3'
miRNA:   3'- aGAGU-----CAGCCGC--UGGCCGCuUCAGCa -5'
16408 3' -57.2 NC_004084.1 + 47346 0.68 0.552285
Target:  5'- cCUCAagcacauguucGUCGGCGGCCGccccuucguccGCGucGUCGa -3'
miRNA:   3'- aGAGU-----------CAGCCGCUGGC-----------CGCuuCAGCa -5'
16408 3' -57.2 NC_004084.1 + 7470 0.68 0.552285
Target:  5'- aCUCgAG-CGGCGA-CGGCGAAGgCGa -3'
miRNA:   3'- aGAG-UCaGCCGCUgGCCGCUUCaGCa -5'
16408 3' -57.2 NC_004084.1 + 9128 0.68 0.541812
Target:  5'- aCUCGaUCGGCGuCCgucgGGCGgAAGUCGa -3'
miRNA:   3'- aGAGUcAGCCGCuGG----CCGC-UUCAGCa -5'
16408 3' -57.2 NC_004084.1 + 21872 0.68 0.517986
Target:  5'- aUCUCcGUCGucgauaccguugucGCGAUCGGCGucucGGUCGg -3'
miRNA:   3'- -AGAGuCAGC--------------CGCUGGCCGCu---UCAGCa -5'
16408 3' -57.2 NC_004084.1 + 52840 0.69 0.470701
Target:  5'- cUCUCGGcguUCGGCG-CUGGCGAccUCGa -3'
miRNA:   3'- -AGAGUC---AGCCGCuGGCCGCUucAGCa -5'
16408 3' -57.2 NC_004084.1 + 52466 0.69 0.470701
Target:  5'- gCUCAGUCGaUGGCCgaGGCGAAGcgCGa -3'
miRNA:   3'- aGAGUCAGCcGCUGG--CCGCUUCa-GCa -5'
16408 3' -57.2 NC_004084.1 + 17266 0.69 0.460921
Target:  5'- --gCAGUCGGCGAugcccUCGGUGGAGgCGg -3'
miRNA:   3'- agaGUCAGCCGCU-----GGCCGCUUCaGCa -5'
16408 3' -57.2 NC_004084.1 + 9885 0.69 0.460921
Target:  5'- ---gAGUCGGCGACCGaugacGUGAAGgCGUa -3'
miRNA:   3'- agagUCAGCCGCUGGC-----CGCUUCaGCA- -5'
16408 3' -57.2 NC_004084.1 + 49272 0.7 0.395693
Target:  5'- -gUCA--CGGCGA-CGGCGAAGUCGa -3'
miRNA:   3'- agAGUcaGCCGCUgGCCGCUUCAGCa -5'
16408 3' -57.2 NC_004084.1 + 2505 0.7 0.395693
Target:  5'- gUC-CAGUCGGCccacuccuCCGGCGGAucGUCGUc -3'
miRNA:   3'- -AGaGUCAGCCGcu------GGCCGCUU--CAGCA- -5'
16408 3' -57.2 NC_004084.1 + 11157 0.71 0.352902
Target:  5'- cCUCguAGUaGGCG-CCGGCGAgccGGUCGUa -3'
miRNA:   3'- aGAG--UCAgCCGCuGGCCGCU---UCAGCA- -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.