miRNA display CGI


Results 1 - 20 of 29 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
5313 5' -55 NC_001798.1 + 102082 0.65 0.969793
Target:  5'- cCCAccGGCGgaUACGGcCCGUaGggggCGUGGg -3'
miRNA:   3'- -GGUa-CCGC--AUGCCuGGCAgCa---GCACC- -5'
5313 5' -55 NC_001798.1 + 52211 0.65 0.969793
Target:  5'- uCC-UGGCGgagcagACGGuCCaguggcucucgGUgGUCGUGGg -3'
miRNA:   3'- -GGuACCGCa-----UGCCuGG-----------CAgCAGCACC- -5'
5313 5' -55 NC_001798.1 + 101739 0.66 0.966821
Target:  5'- ---cGGCGgccCGGGCCGUguccaCGUucaCGUGGg -3'
miRNA:   3'- gguaCCGCau-GCCUGGCA-----GCA---GCACC- -5'
5313 5' -55 NC_001798.1 + 121791 0.66 0.96027
Target:  5'- uCUcgGGCGgggcCGGGCCGgcCGUUGUcGGc -3'
miRNA:   3'- -GGuaCCGCau--GCCUGGCa-GCAGCA-CC- -5'
5313 5' -55 NC_001798.1 + 36143 0.67 0.94461
Target:  5'- gCCGguggGGCGcgGCGG-CgGUCGggGUGGg -3'
miRNA:   3'- -GGUa---CCGCa-UGCCuGgCAGCagCACC- -5'
5313 5' -55 NC_001798.1 + 11970 0.67 0.940142
Target:  5'- uCCAgGGCGgauagGCgGGGCUGUgGgCGUGGu -3'
miRNA:   3'- -GGUaCCGCa----UG-CCUGGCAgCaGCACC- -5'
5313 5' -55 NC_001798.1 + 154271 0.67 0.939683
Target:  5'- cCCGgcUGGCGUGCgcagcccGGGCCGU-GUUGcGGg -3'
miRNA:   3'- -GGU--ACCGCAUG-------CCUGGCAgCAGCaCC- -5'
5313 5' -55 NC_001798.1 + 59054 0.67 0.935448
Target:  5'- aCAUGGCGUccgcauACGGGCCG-CG-CGa-- -3'
miRNA:   3'- gGUACCGCA------UGCCUGGCaGCaGCacc -5'
5313 5' -55 NC_001798.1 + 120708 0.68 0.925377
Target:  5'- gCCGUccGGCGaACGGcGCCGUCcaUCGUGa -3'
miRNA:   3'- -GGUA--CCGCaUGCC-UGGCAGc-AGCACc -5'
5313 5' -55 NC_001798.1 + 120773 0.68 0.922177
Target:  5'- gCCGUGGCGUugGuGugCGUCaccacccgcggcaUGUGGu -3'
miRNA:   3'- -GGUACCGCAugC-CugGCAGca-----------GCACC- -5'
5313 5' -55 NC_001798.1 + 4219 0.68 0.919999
Target:  5'- --cUGGCGggggcGCGGGCggCGUCGUCGUc- -3'
miRNA:   3'- gguACCGCa----UGCCUG--GCAGCAGCAcc -5'
5313 5' -55 NC_001798.1 + 74402 0.68 0.914393
Target:  5'- gCCGUGGCGccgGCGGACCugacCGcCGcGGc -3'
miRNA:   3'- -GGUACCGCa--UGCCUGGca--GCaGCaCC- -5'
5313 5' -55 NC_001798.1 + 4021 0.68 0.908561
Target:  5'- cCCGUGGCGUcGCGGccggccACCGcCG-CGcGGg -3'
miRNA:   3'- -GGUACCGCA-UGCC------UGGCaGCaGCaCC- -5'
5313 5' -55 NC_001798.1 + 24573 0.68 0.908561
Target:  5'- gCCGgcgcGCGgagGCGGGCCG-CGUggcCGUGGa -3'
miRNA:   3'- -GGUac--CGCa--UGCCUGGCaGCA---GCACC- -5'
5313 5' -55 NC_001798.1 + 5388 0.69 0.889726
Target:  5'- uCCGUGGCG-GCGGcCCGUUGgUCGc-- -3'
miRNA:   3'- -GGUACCGCaUGCCuGGCAGC-AGCacc -5'
5313 5' -55 NC_001798.1 + 77236 0.69 0.876082
Target:  5'- gCAUGGCGcccugGCGGACgCGgUGUCGgcccUGGg -3'
miRNA:   3'- gGUACCGCa----UGCCUG-GCaGCAGC----ACC- -5'
5313 5' -55 NC_001798.1 + 91806 0.7 0.846342
Target:  5'- gCggGGCGUGgGGACCGUgGgCG-GGg -3'
miRNA:   3'- gGuaCCGCAUgCCUGGCAgCaGCaCC- -5'
5313 5' -55 NC_001798.1 + 124500 0.7 0.846342
Target:  5'- gCCAUGGCGgggggggggcUGCGGGCgUGUCGUCc--- -3'
miRNA:   3'- -GGUACCGC----------AUGCCUG-GCAGCAGcacc -5'
5313 5' -55 NC_001798.1 + 4441 0.7 0.812789
Target:  5'- gCCAUGGgGUccggguacgccccGCGGACCGcggaCGUCGUc- -3'
miRNA:   3'- -GGUACCgCA-------------UGCCUGGCa---GCAGCAcc -5'
5313 5' -55 NC_001798.1 + 30775 0.71 0.805054
Target:  5'- ---cGGcCGUGCGGGCCGgcaCGgcCGUGGa -3'
miRNA:   3'- gguaCC-GCAUGCCUGGCa--GCa-GCACC- -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.