miRNA display CGI


Results 1 - 20 of 31 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
32217 3' -59.1 NC_007016.1 + 103956 0.66 0.729014
Target:  5'- aGAUUGCGGcCGCcagGGUGG-GCCacauGGCg -3'
miRNA:   3'- -UUAACGCCcGUGua-CCACCgCGG----CCG- -5'
32217 3' -59.1 NC_007016.1 + 591 0.66 0.729014
Target:  5'- --cUGCuaGGGCugGuaguagUGG-GGCaGCCGGCc -3'
miRNA:   3'- uuaACG--CCCGugU------ACCaCCG-CGGCCG- -5'
32217 3' -59.1 NC_007016.1 + 30890 0.66 0.729014
Target:  5'- --gUGcCGGGC----GGUGGUGCgCGGCc -3'
miRNA:   3'- uuaAC-GCCCGuguaCCACCGCG-GCCG- -5'
32217 3' -59.1 NC_007016.1 + 78466 0.66 0.719101
Target:  5'- ---gGCcgGGGCGguCAUGGUGGaggcaCCGGCg -3'
miRNA:   3'- uuaaCG--CCCGU--GUACCACCgc---GGCCG- -5'
32217 3' -59.1 NC_007016.1 + 130250 0.66 0.719101
Target:  5'- --aUGcCGGGCggccgccgcccgGCAUGGcGGUccuccGCCGGCc -3'
miRNA:   3'- uuaAC-GCCCG------------UGUACCaCCG-----CGGCCG- -5'
32217 3' -59.1 NC_007016.1 + 72717 0.66 0.719101
Target:  5'- gGGUUGCGGGaaGCGUGGccaCGUCGGUg -3'
miRNA:   3'- -UUAACGCCCg-UGUACCaccGCGGCCG- -5'
32217 3' -59.1 NC_007016.1 + 72445 0.66 0.719101
Target:  5'- ---aGUGGG-ACGUGGggGGUGCUGaGCu -3'
miRNA:   3'- uuaaCGCCCgUGUACCa-CCGCGGC-CG- -5'
32217 3' -59.1 NC_007016.1 + 13461 0.66 0.69906
Target:  5'- ---gGCGGGaagagccuGCAgacgucUGGUggcggcugaacGGCGCCGGCg -3'
miRNA:   3'- uuaaCGCCCg-------UGU------ACCA-----------CCGCGGCCG- -5'
32217 3' -59.1 NC_007016.1 + 53713 0.66 0.69906
Target:  5'- ----aCGGcGUugGUGG-GGCGuuGGCa -3'
miRNA:   3'- uuaacGCC-CGugUACCaCCGCggCCG- -5'
32217 3' -59.1 NC_007016.1 + 28148 0.66 0.696032
Target:  5'- -uUUGgGGGCACGccgaccacgagcccUGGgucaGGUuguucGCCGGCa -3'
miRNA:   3'- uuAACgCCCGUGU--------------ACCa---CCG-----CGGCCG- -5'
32217 3' -59.1 NC_007016.1 + 130194 0.66 0.688949
Target:  5'- ---cGCgGGGCgGCcgGG-GGCGgCGGCc -3'
miRNA:   3'- uuaaCG-CCCG-UGuaCCaCCGCgGCCG- -5'
32217 3' -59.1 NC_007016.1 + 116105 0.66 0.685907
Target:  5'- ---gGCGGGUucgacccauugaccGCAUccucGGUGGCcgggcagagGCCGGCc -3'
miRNA:   3'- uuaaCGCCCG--------------UGUA----CCACCG---------CGGCCG- -5'
32217 3' -59.1 NC_007016.1 + 67932 0.67 0.676755
Target:  5'- cAGUUGCcGGCACGUcucggcaGGUGGaagcgucCGCgGGCg -3'
miRNA:   3'- -UUAACGcCCGUGUA-------CCACC-------GCGgCCG- -5'
32217 3' -59.1 NC_007016.1 + 122772 0.67 0.668595
Target:  5'- ---aGCGaGGC-CA-GGUGGCGCCcguccGGUg -3'
miRNA:   3'- uuaaCGC-CCGuGUaCCACCGCGG-----CCG- -5'
32217 3' -59.1 NC_007016.1 + 97713 0.67 0.668595
Target:  5'- -cUUGUGGGCAC---GUGGCuuCCGGUa -3'
miRNA:   3'- uuAACGCCCGUGuacCACCGc-GGCCG- -5'
32217 3' -59.1 NC_007016.1 + 88186 0.67 0.627598
Target:  5'- --cUGCuccGGGU--GUGGUGGCG-CGGCa -3'
miRNA:   3'- uuaACG---CCCGugUACCACCGCgGCCG- -5'
32217 3' -59.1 NC_007016.1 + 124089 0.67 0.627598
Target:  5'- ----cCGGGguC-UGGUGGUGuCCGGCc -3'
miRNA:   3'- uuaacGCCCguGuACCACCGC-GGCCG- -5'
32217 3' -59.1 NC_007016.1 + 119170 0.68 0.617337
Target:  5'- gGAUUGCggaGGGgGCGaGGacguUGGCGuuGGCg -3'
miRNA:   3'- -UUAACG---CCCgUGUaCC----ACCGCggCCG- -5'
32217 3' -59.1 NC_007016.1 + 8016 0.68 0.617337
Target:  5'- -----gGGGCGCAgacgccccgUGGcGGCGaCCGGCu -3'
miRNA:   3'- uuaacgCCCGUGU---------ACCaCCGC-GGCCG- -5'
32217 3' -59.1 NC_007016.1 + 28899 0.69 0.556263
Target:  5'- ---aGCGaGGC-CA-GGUugaGGCGCCGGUg -3'
miRNA:   3'- uuaaCGC-CCGuGUaCCA---CCGCGGCCG- -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.