miRNA display CGI


Results 1 - 20 of 34 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
19625 3' -57.5 NC_004686.1 + 250 0.69 0.409771
Target:  5'- -aCGGuaUCGGuccaugUGCUGAUGGCGCGGUc -3'
miRNA:   3'- aaGCUcaAGCU------GCGGCUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 1213 0.67 0.517478
Target:  5'- gUCG-GUUUG-UG-CGGUGGCGCGGUu -3'
miRNA:   3'- aAGCuCAAGCuGCgGCUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 1681 0.66 0.613125
Target:  5'- -aCGAGgguugCGuuGUCGAcuUGGgGCGGCu -3'
miRNA:   3'- aaGCUCaa---GCugCGGCU--ACCgCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 8841 0.66 0.569039
Target:  5'- ---cAGUUCGAucugcucagcccaCGCCucgacGGUGGCGCGGUu -3'
miRNA:   3'- aagcUCAAGCU-------------GCGG-----CUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 10120 0.68 0.465911
Target:  5'- gUUCGAuggcgcgGUUCagaaccuuGACGCCGccuUGGgGCGGCu -3'
miRNA:   3'- -AAGCU-------CAAG--------CUGCGGCu--ACCgCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 11757 0.77 0.143625
Target:  5'- cUUCGAGUUCGACGCCGAUuGCuuugcgacccaaguuGCGuGCc -3'
miRNA:   3'- -AAGCUCAAGCUGCGGCUAcCG---------------CGC-CG- -5'
19625 3' -57.5 NC_004686.1 + 12138 0.7 0.386403
Target:  5'- -gCGGGcaguUUCGGCGCCGgcGGUcaggccgcggggccaGCGGCg -3'
miRNA:   3'- aaGCUC----AAGCUGCGGCuaCCG---------------CGCCG- -5'
19625 3' -57.5 NC_004686.1 + 12441 1.09 0.000589
Target:  5'- cUUCGAGUUCGACGCCGAUGGCGCGGCg -3'
miRNA:   3'- -AAGCUCAAGCUGCGGCUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 14507 0.67 0.517478
Target:  5'- -gCGAuc-CGGaGCCG-UGGCGCGGCg -3'
miRNA:   3'- aaGCUcaaGCUgCGGCuACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 15452 0.69 0.400679
Target:  5'- uUUCu-GUg-GAUGCUGGUGGCGUGGCc -3'
miRNA:   3'- -AAGcuCAagCUGCGGCUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 17778 0.73 0.241185
Target:  5'- -gCGAGUcCGGgGCCGAUGaugccCGCGGCg -3'
miRNA:   3'- aaGCUCAaGCUgCGGCUACc----GCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 18111 0.66 0.602325
Target:  5'- gUCG-GUUCGuucuC-CCaAUGGUGCGGCg -3'
miRNA:   3'- aAGCuCAAGCu---GcGGcUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 19131 0.67 0.548859
Target:  5'- aUCGAGggugaacauUUCGACGCCGAUgaGGaCGUGa- -3'
miRNA:   3'- aAGCUC---------AAGCUGCGGCUA--CC-GCGCcg -5'
19625 3' -57.5 NC_004686.1 + 20971 0.7 0.348912
Target:  5'- -aCGGGgguauaUCGGCGCCGAUcacugguauugGGgGCGGUa -3'
miRNA:   3'- aaGCUCa-----AGCUGCGGCUA-----------CCgCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 21070 0.69 0.4378
Target:  5'- gUUCGAGUgggucucaGACuGCCaccuacGGUGGUGUGGCg -3'
miRNA:   3'- -AAGCUCAag------CUG-CGG------CUACCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 21165 0.67 0.559454
Target:  5'- -gCGuuGUUCcGCGCCGcgGGgGCuGGCa -3'
miRNA:   3'- aaGCu-CAAGcUGCGGCuaCCgCG-CCG- -5'
19625 3' -57.5 NC_004686.1 + 21824 0.73 0.235089
Target:  5'- -gCGGGUgcgccUCGGCGgCGcgGGCGCGGg -3'
miRNA:   3'- aaGCUCA-----AGCUGCgGCuaCCGCGCCg -5'
19625 3' -57.5 NC_004686.1 + 21880 0.69 0.400679
Target:  5'- -cCGGGUaucgcuacggCGGCGgCGGUGGCGgUGGCg -3'
miRNA:   3'- aaGCUCAa---------GCUGCgGCUACCGC-GCCG- -5'
19625 3' -57.5 NC_004686.1 + 23213 0.66 0.62394
Target:  5'- gUCGuca--GGCGCgGGaGGUGCGGCa -3'
miRNA:   3'- aAGCucaagCUGCGgCUaCCGCGCCG- -5'
19625 3' -57.5 NC_004686.1 + 24404 0.67 0.548859
Target:  5'- -gCGGGgaugguuauccggUGACGCCGAcugacgauagucgGGCGUGGCg -3'
miRNA:   3'- aaGCUCaa-----------GCUGCGGCUa------------CCGCGCCG- -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.