miRNA display CGI


Results 1 - 20 of 28 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
29376 3' -53.4 NC_006151.1 + 127532 0.66 0.96522
Target:  5'- cGCGUCaGCggGGCCCA----GGGGGCg -3'
miRNA:   3'- -UGCAGaUGgaCCGGGUgaaaCUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 91174 0.66 0.961773
Target:  5'- cACGUCgg---GcGCCCGCgagGGGAGCa -3'
miRNA:   3'- -UGCAGauggaC-CGGGUGaaaCUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 11524 0.66 0.961773
Target:  5'- cGCGgcaCU-CCgGGCCCGCg-UGAGAGg -3'
miRNA:   3'- -UGCa--GAuGGaCCGGGUGaaACUCUCg -5'
29376 3' -53.4 NC_006151.1 + 97707 0.66 0.958096
Target:  5'- uGCGUC-ACgUGGCCCA-----GGAGCc -3'
miRNA:   3'- -UGCAGaUGgACCGGGUgaaacUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 2734 0.66 0.954183
Target:  5'- gGCGaagcagGCCgGGCCCACgaUG-GAGCu -3'
miRNA:   3'- -UGCaga---UGGaCCGGGUGaaACuCUCG- -5'
29376 3' -53.4 NC_006151.1 + 84351 0.67 0.945635
Target:  5'- uACGUC-GCC-GGCCCGCggcggUGAucGCg -3'
miRNA:   3'- -UGCAGaUGGaCCGGGUGaa---ACUcuCG- -5'
29376 3' -53.4 NC_006151.1 + 713 0.67 0.945635
Target:  5'- cCGUCgcACCgggGGUCCGCgggcGGGGGCu -3'
miRNA:   3'- uGCAGa-UGGa--CCGGGUGaaa-CUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 111292 0.67 0.945635
Target:  5'- uACG-CgGCCUGGCCCACgaacgcGGCg -3'
miRNA:   3'- -UGCaGaUGGACCGGGUGaaacucUCG- -5'
29376 3' -53.4 NC_006151.1 + 70910 0.67 0.945635
Target:  5'- uGCG-CUGCCUGGCgCGCg-UGcuGGCg -3'
miRNA:   3'- -UGCaGAUGGACCGgGUGaaACucUCG- -5'
29376 3' -53.4 NC_006151.1 + 22990 0.67 0.936102
Target:  5'- -gGUCgugAUCUcGGCCgCGCgggUGGGGGCg -3'
miRNA:   3'- ugCAGa--UGGA-CCGG-GUGaa-ACUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 111463 0.68 0.915225
Target:  5'- uGCGUCUGCgaggcgucgucggGGCCCAUgaagcggaacGAGAGCu -3'
miRNA:   3'- -UGCAGAUGga-----------CCGGGUGaaa-------CUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 132285 0.68 0.914626
Target:  5'- cACGUCcugggccaccACCUGGUCCGCgugcaggcgccacGAGAGCu -3'
miRNA:   3'- -UGCAGa---------UGGACCGGGUGaaa----------CUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 119111 0.68 0.914026
Target:  5'- uACGUgaGCCgcgcGGCCgGCcucgUGGGGGCg -3'
miRNA:   3'- -UGCAgaUGGa---CCGGgUGaa--ACUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 23140 0.68 0.901486
Target:  5'- cCGUC-GCCgGGCCCuCggcGGGAGCg -3'
miRNA:   3'- uGCAGaUGGaCCGGGuGaaaCUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 6918 0.68 0.901486
Target:  5'- cGCGUCUACUUugcauguccGGCCCc----GAGGGCg -3'
miRNA:   3'- -UGCAGAUGGA---------CCGGGugaaaCUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 106992 0.68 0.894848
Target:  5'- cGCGU--GCCUGGCgCCGCagcuGGAGCg -3'
miRNA:   3'- -UGCAgaUGGACCG-GGUGaaacUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 9470 0.68 0.894848
Target:  5'- cGCGUCcGCUUcGGCCCcccgcggccgcgGCguggGAGAGCg -3'
miRNA:   3'- -UGCAGaUGGA-CCGGG------------UGaaa-CUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 35570 0.68 0.887968
Target:  5'- gGCGaaaaUCgGCCauUGGUCCGCUUaccUGGGGGCg -3'
miRNA:   3'- -UGC----AGaUGG--ACCGGGUGAA---ACUCUCG- -5'
29376 3' -53.4 NC_006151.1 + 70022 0.69 0.880851
Target:  5'- cCGUCUGCacgUGGCCCGCgaacacgGAGAc- -3'
miRNA:   3'- uGCAGAUGg--ACCGGGUGaaa----CUCUcg -5'
29376 3' -53.4 NC_006151.1 + 13989 0.7 0.807073
Target:  5'- cGCGUCc-CCggGGCCCACgugUGAG-GCc -3'
miRNA:   3'- -UGCAGauGGa-CCGGGUGaa-ACUCuCG- -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.