miRNA display CGI


Results 1 - 20 of 30 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
29603 3' -59.4 NC_006151.1 + 68379 0.73 0.361364
Target:  5'- gUCCUCCGucagggccGCGGc-CACCUCCaUGGCg -3'
miRNA:   3'- -AGGAGGCu-------CGCCauGUGGAGG-ACCGa -5'
29603 3' -59.4 NC_006151.1 + 117783 0.73 0.377266
Target:  5'- -gCUCCGGGCGGgGCGCCacgCCcGGCg -3'
miRNA:   3'- agGAGGCUCGCCaUGUGGa--GGaCCGa -5'
29603 3' -59.4 NC_006151.1 + 100594 0.73 0.377266
Target:  5'- gUCCUgCGGcccGUGGaGCGCUUCCUGGCg -3'
miRNA:   3'- -AGGAgGCU---CGCCaUGUGGAGGACCGa -5'
29603 3' -59.4 NC_006151.1 + 98614 0.73 0.380502
Target:  5'- gCCUCgugagCGAGUGGUGCGCCgccuucgacgaggcCCUGGCg -3'
miRNA:   3'- aGGAG-----GCUCGCCAUGUGGa-------------GGACCGa -5'
29603 3' -59.4 NC_006151.1 + 134977 0.71 0.436499
Target:  5'- gCCUCCGGGCcuucucGGgcggGCGCgUCUUGGCg -3'
miRNA:   3'- aGGAGGCUCG------CCa---UGUGgAGGACCGa -5'
29603 3' -59.4 NC_006151.1 + 81188 0.71 0.481932
Target:  5'- gCCgCCGAGCGuGUACGCCgggccgcagUCCgGGCg -3'
miRNA:   3'- aGGaGGCUCGC-CAUGUGG---------AGGaCCGa -5'
29603 3' -59.4 NC_006151.1 + 40243 0.7 0.491294
Target:  5'- cUCCgCUGAGCGGgGCGCCcCCUcGGCc -3'
miRNA:   3'- -AGGaGGCUCGCCaUGUGGaGGA-CCGa -5'
29603 3' -59.4 NC_006151.1 + 113516 0.7 0.510265
Target:  5'- -gCUUCGuGGCGGacgcGCGCUUCCUGGCg -3'
miRNA:   3'- agGAGGC-UCGCCa---UGUGGAGGACCGa -5'
29603 3' -59.4 NC_006151.1 + 58963 0.7 0.539269
Target:  5'- cCCUCgGugcGCGGccACGCCUCCgcgGGCa -3'
miRNA:   3'- aGGAGgCu--CGCCa-UGUGGAGGa--CCGa -5'
29603 3' -59.4 NC_006151.1 + 18302 0.69 0.558914
Target:  5'- gUCgaagCCgGAGCGGgGCGCCUCCUcggGGCg -3'
miRNA:   3'- aGGa---GG-CUCGCCaUGUGGAGGA---CCGa -5'
29603 3' -59.4 NC_006151.1 + 5611 0.69 0.568813
Target:  5'- cCCUCCG-GCGGaggggGCGCCgccgCCgccgGGCg -3'
miRNA:   3'- aGGAGGCuCGCCa----UGUGGa---GGa---CCGa -5'
29603 3' -59.4 NC_006151.1 + 138524 0.68 0.607772
Target:  5'- gUCCUCggggugaUGGGCGcGUACGCCggCCUGgGCg -3'
miRNA:   3'- -AGGAG-------GCUCGC-CAUGUGGa-GGAC-CGa -5'
29603 3' -59.4 NC_006151.1 + 108672 0.68 0.608776
Target:  5'- cCCUCagcagccgGAGCGGcggcccgaGCACCUCCUGGa- -3'
miRNA:   3'- aGGAGg-------CUCGCCa-------UGUGGAGGACCga -5'
29603 3' -59.4 NC_006151.1 + 81663 0.68 0.608776
Target:  5'- uUCCcCCGcacggagcGGCGGUACGCCUC--GGCg -3'
miRNA:   3'- -AGGaGGC--------UCGCCAUGUGGAGgaCCGa -5'
29603 3' -59.4 NC_006151.1 + 53966 0.68 0.608776
Target:  5'- gCCagCG-GCGGcgGCGCCUCCgcgGGCg -3'
miRNA:   3'- aGGagGCuCGCCa-UGUGGAGGa--CCGa -5'
29603 3' -59.4 NC_006151.1 + 28100 0.68 0.618826
Target:  5'- gUCCU-CGAGCGGggcGCGgCUCCUcgucGGCUc -3'
miRNA:   3'- -AGGAgGCUCGCCa--UGUgGAGGA----CCGA- -5'
29603 3' -59.4 NC_006151.1 + 73095 0.68 0.628886
Target:  5'- cCCUCCucGCcGUGCACCUCgCcGGCg -3'
miRNA:   3'- aGGAGGcuCGcCAUGUGGAG-GaCCGa -5'
29603 3' -59.4 NC_006151.1 + 135044 0.68 0.649005
Target:  5'- gUCCUCgGGGCGGUcCcCCUCCUcGUc -3'
miRNA:   3'- -AGGAGgCUCGCCAuGuGGAGGAcCGa -5'
29603 3' -59.4 NC_006151.1 + 84931 0.68 0.653024
Target:  5'- gCCUCCGGcgugcucuucggcacGUGGUACGCCacgcUCCaGGCc -3'
miRNA:   3'- aGGAGGCU---------------CGCCAUGUGG----AGGaCCGa -5'
29603 3' -59.4 NC_006151.1 + 97620 0.67 0.676071
Target:  5'- aCCUgCGAGCGGcgcgcggccaUGucguuggugcgcgcCGCCUCCUGGUc -3'
miRNA:   3'- aGGAgGCUCGCC----------AU--------------GUGGAGGACCGa -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.