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
18101 3' -59.3 NC_004680.1 + 12681 0.66 0.535205
Target:  5'- aUGCCGCCgGCC-UGcaccGCCAUuccgaGCGCa -3'
miRNA:   3'- cACGGCGGgUGGcACca--CGGUA-----UGCG- -5'
18101 3' -59.3 NC_004680.1 + 7703 0.66 0.524892
Target:  5'- --uCCGCgacaACCGUGGUGCCGcgACGg -3'
miRNA:   3'- cacGGCGgg--UGGCACCACGGUa-UGCg -5'
18101 3' -59.3 NC_004680.1 + 36238 0.66 0.514655
Target:  5'- -cGCCGCCCugCGggcaUGGgaugcGUCcgGCGUc -3'
miRNA:   3'- caCGGCGGGugGC----ACCa----CGGuaUGCG- -5'
18101 3' -59.3 NC_004680.1 + 11742 0.66 0.514655
Target:  5'- -gGCCGCCCugaGUGGgGUUAUAgGCc -3'
miRNA:   3'- caCGGCGGGuggCACCaCGGUAUgCG- -5'
18101 3' -59.3 NC_004680.1 + 27594 0.66 0.511599
Target:  5'- -gGCCGCCCcggcaucucggaucACCGcugGGUGaCCG-ACGUg -3'
miRNA:   3'- caCGGCGGG--------------UGGCa--CCAC-GGUaUGCG- -5'
18101 3' -59.3 NC_004680.1 + 44304 0.67 0.445574
Target:  5'- cUGCCGCUaggcCCGgacaGUGCgAUGCGCg -3'
miRNA:   3'- cACGGCGGgu--GGCac--CACGgUAUGCG- -5'
18101 3' -59.3 NC_004680.1 + 12340 0.67 0.444624
Target:  5'- gGUGCCGCgCCGgggagucCCGcgucUGGUGCUG-GCGCg -3'
miRNA:   3'- -CACGGCG-GGU-------GGC----ACCACGGUaUGCG- -5'
18101 3' -59.3 NC_004680.1 + 8535 0.68 0.417586
Target:  5'- uGUGgUGCCUGCCGggugGGUGCCAg---- -3'
miRNA:   3'- -CACgGCGGGUGGCa---CCACGGUaugcg -5'
18101 3' -59.3 NC_004680.1 + 3973 0.68 0.416672
Target:  5'- aGUGCCGCugcgacgcucuuaCCuuCCGacaGUGCCGUACGUg -3'
miRNA:   3'- -CACGGCG-------------GGu-GGCac-CACGGUAUGCG- -5'
18101 3' -59.3 NC_004680.1 + 58645 0.68 0.408498
Target:  5'- cGUGUCGCguCCGCCGUGuuuCCAUGCGa -3'
miRNA:   3'- -CACGGCG--GGUGGCACcacGGUAUGCg -5'
18101 3' -59.3 NC_004680.1 + 18142 0.69 0.364962
Target:  5'- gGUGCCGUaCAUCGaUGGUGU--UGCGCa -3'
miRNA:   3'- -CACGGCGgGUGGC-ACCACGguAUGCG- -5'
18101 3' -59.3 NC_004680.1 + 50194 0.69 0.364962
Target:  5'- -gGCUGCUCGCCGaauUGGUaGCCGagguugagcgucUGCGCc -3'
miRNA:   3'- caCGGCGGGUGGC---ACCA-CGGU------------AUGCG- -5'
18101 3' -59.3 NC_004680.1 + 15825 0.69 0.362454
Target:  5'- cGUGUuuuaugCGCCCGCgGUgGGUguggauuuugagcaGCCGUACGCc -3'
miRNA:   3'- -CACG------GCGGGUGgCA-CCA--------------CGGUAUGCG- -5'
18101 3' -59.3 NC_004680.1 + 55134 0.69 0.340424
Target:  5'- -aGCCacCCCACCGUGGa-CCAgACGCu -3'
miRNA:   3'- caCGGc-GGGUGGCACCacGGUaUGCG- -5'
18101 3' -59.3 NC_004680.1 + 47583 0.69 0.339626
Target:  5'- -cGCCGCCUAcgauCCGUGGUuuccucaGCCGaaccGCGCc -3'
miRNA:   3'- caCGGCGGGU----GGCACCA-------CGGUa---UGCG- -5'
18101 3' -59.3 NC_004680.1 + 23290 0.69 0.332514
Target:  5'- aUGCCGCCCuCCacauaGGUGCCugcCGCc -3'
miRNA:   3'- cACGGCGGGuGGca---CCACGGuauGCG- -5'
18101 3' -59.3 NC_004680.1 + 27402 0.69 0.32474
Target:  5'- cGUGCUGCCUgguCCGUGGgcaacGCCAacaGCa -3'
miRNA:   3'- -CACGGCGGGu--GGCACCa----CGGUaugCG- -5'
18101 3' -59.3 NC_004680.1 + 20532 0.7 0.3096
Target:  5'- aUGUgGCCCAUCGUgaucgcGGUGCCGUucgggAUGCc -3'
miRNA:   3'- cACGgCGGGUGGCA------CCACGGUA-----UGCG- -5'
18101 3' -59.3 NC_004680.1 + 25898 0.7 0.295004
Target:  5'- -gGCCG-CCGCCGcaGUGCCGaACGCa -3'
miRNA:   3'- caCGGCgGGUGGCacCACGGUaUGCG- -5'
18101 3' -59.3 NC_004680.1 + 24900 0.7 0.28791
Target:  5'- gGUGCCGCCgGCgGUGGUGgCGguucCGg -3'
miRNA:   3'- -CACGGCGGgUGgCACCACgGUau--GCg -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.