miRNA display CGI


Results 1 - 20 of 53 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
30531 3' -57.2 NC_006548.1 + 26301 0.66 0.456092
Target:  5'- cGCgccgCGCGCUuuuacuaccUGCAGCa-GAGCGCg -3'
miRNA:   3'- aCGa---GUGCGGua-------ACGUCGcgCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 8984 0.69 0.335611
Target:  5'- gUGCUcCACGCagcccucaAUggaUGCacAGgGCGAGCGCg -3'
miRNA:   3'- -ACGA-GUGCGg-------UA---ACG--UCgCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 36608 0.69 0.335611
Target:  5'- gUGCUCGCGCgGggaUGCgucgauacGGUGCcAGCGCc -3'
miRNA:   3'- -ACGAGUGCGgUa--ACG--------UCGCGcUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 1187 0.68 0.369214
Target:  5'- gGUUCACGCCAggaGCcggcugcaaagccGGUaCGGGCGCu -3'
miRNA:   3'- aCGAGUGCGGUaa-CG-------------UCGcGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 19601 0.68 0.3791
Target:  5'- aGCggguagaGCGCUAUcUGCAGCGC--GCGCu -3'
miRNA:   3'- aCGag-----UGCGGUA-ACGUCGCGcuCGCG- -5'
30531 3' -57.2 NC_006548.1 + 28537 0.68 0.3791
Target:  5'- cUGCUCgGCGCCGgccaGGuCGCG-GCGCu -3'
miRNA:   3'- -ACGAG-UGCGGUaacgUC-GCGCuCGCG- -5'
30531 3' -57.2 NC_006548.1 + 23057 0.67 0.397522
Target:  5'- cUGCUCAguugcUGCCGUugggUGCaaucgAGCGgGAGCGg -3'
miRNA:   3'- -ACGAGU-----GCGGUA----ACG-----UCGCgCUCGCg -5'
30531 3' -57.2 NC_006548.1 + 16334 0.67 0.41651
Target:  5'- cUGCa-GCGCCGUgGCGGCaacgaccuGCGGGUGUa -3'
miRNA:   3'- -ACGagUGCGGUAaCGUCG--------CGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 34982 0.66 0.446004
Target:  5'- aGC-CACGCacgUGCGGagGCGAGCa- -3'
miRNA:   3'- aCGaGUGCGguaACGUCg-CGCUCGcg -5'
30531 3' -57.2 NC_006548.1 + 9579 0.69 0.319265
Target:  5'- gGCgCACGCgAUcagUGCaucgAGCGCG-GCGCg -3'
miRNA:   3'- aCGaGUGCGgUA---ACG----UCGCGCuCGCG- -5'
30531 3' -57.2 NC_006548.1 + 15756 0.69 0.303523
Target:  5'- -cCUCugGCCcugGUUcCAGCGCuguGAGCGCa -3'
miRNA:   3'- acGAGugCGG---UAAcGUCGCG---CUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 20660 0.7 0.288386
Target:  5'- cGCUCcaggaGCGCCAacGcCAGCucgaCGAGCGCg -3'
miRNA:   3'- aCGAG-----UGCGGUaaC-GUCGc---GCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 12810 0.74 0.134339
Target:  5'- uUGCU--CGCCAgUGCcGCGCGAGCGg -3'
miRNA:   3'- -ACGAguGCGGUaACGuCGCGCUCGCg -5'
30531 3' -57.2 NC_006548.1 + 22960 0.74 0.134339
Target:  5'- gGcCUCAaggacCGCUucaucgUGCAGCGCGAGCGUc -3'
miRNA:   3'- aC-GAGU-----GCGGua----ACGUCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 12933 0.74 0.142196
Target:  5'- gGCUCGCGCUgagcgcggUGCuGUGCG-GCGCa -3'
miRNA:   3'- aCGAGUGCGGua------ACGuCGCGCuCGCG- -5'
30531 3' -57.2 NC_006548.1 + 19120 0.74 0.14628
Target:  5'- gUGCUCaACGCgg--GCAGCGC-AGCGCu -3'
miRNA:   3'- -ACGAG-UGCGguaaCGUCGCGcUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 27201 0.74 0.14628
Target:  5'- gUGCUCGCGuCCAgcagGCGGCGacCGAGCa- -3'
miRNA:   3'- -ACGAGUGC-GGUaa--CGUCGC--GCUCGcg -5'
30531 3' -57.2 NC_006548.1 + 10119 0.74 0.14628
Target:  5'- cGCUCGCGCU--UGCuGCGUGGGC-Ca -3'
miRNA:   3'- aCGAGUGCGGuaACGuCGCGCUCGcG- -5'
30531 3' -57.2 NC_006548.1 + 32706 0.74 0.15477
Target:  5'- aGUUCuACGCaga-GgGGCGCGAGCGCg -3'
miRNA:   3'- aCGAG-UGCGguaaCgUCGCGCUCGCG- -5'
30531 3' -57.2 NC_006548.1 + 32415 0.72 0.203666
Target:  5'- aGCcgUCGcCGCCGUUGCcguucgcGGCGCugcagGAGCGCa -3'
miRNA:   3'- aCG--AGU-GCGGUAACG-------UCGCG-----CUCGCG- -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.