miRNA display CGI


Results 1 - 20 of 24 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
33140 3' -56.3 NC_007497.1 + 35642 0.66 0.616487
Target:  5'- -aCUGGcCCGACGCgAAUGCUUGCc- -3'
miRNA:   3'- gcGACCcGGCUGUGgUUGUGAACGcu -5'
33140 3' -56.3 NC_007497.1 + 196 0.66 0.616487
Target:  5'- aGCUGGaGCCGucuguCGCCGcgguGCGCgacgaUGUGAu -3'
miRNA:   3'- gCGACC-CGGCu----GUGGU----UGUGa----ACGCU- -5'
33140 3' -56.3 NC_007497.1 + 15691 0.66 0.615376
Target:  5'- gGCUGGcuguuucGUCGACAgCCGAgGCcgUGCGGg -3'
miRNA:   3'- gCGACC-------CGGCUGU-GGUUgUGa-ACGCU- -5'
33140 3' -56.3 NC_007497.1 + 8684 0.66 0.60428
Target:  5'- gGCUGGcGUCGACGgccggcggcuauuUCAACGCggUGCGu -3'
miRNA:   3'- gCGACC-CGGCUGU-------------GGUUGUGa-ACGCu -5'
33140 3' -56.3 NC_007497.1 + 1696 0.66 0.598741
Target:  5'- uGCUGGagcGCCGcaaagagauuGCGCCGGCGCUUcacgauuucgagaagGCGGg -3'
miRNA:   3'- gCGACC---CGGC----------UGUGGUUGUGAA---------------CGCU- -5'
33140 3' -56.3 NC_007497.1 + 8200 0.66 0.572273
Target:  5'- gGCguacGGGCCGGCACaCGAucgggugguCACgaagGCGAu -3'
miRNA:   3'- gCGa---CCCGGCUGUG-GUU---------GUGaa--CGCU- -5'
33140 3' -56.3 NC_007497.1 + 31181 0.67 0.528852
Target:  5'- aCGUcGGG-CGGCucaaaaauuuGCCGAUACUUGCGGc -3'
miRNA:   3'- -GCGaCCCgGCUG----------UGGUUGUGAACGCU- -5'
33140 3' -56.3 NC_007497.1 + 41646 0.67 0.518179
Target:  5'- gCGCU-GGCCGGCGCCGucCGagcGCGAg -3'
miRNA:   3'- -GCGAcCCGGCUGUGGUu-GUgaaCGCU- -5'
33140 3' -56.3 NC_007497.1 + 44544 0.68 0.497099
Target:  5'- -uCUGGGCUGGCGCCGGCuGCUga-GAc -3'
miRNA:   3'- gcGACCCGGCUGUGGUUG-UGAacgCU- -5'
33140 3' -56.3 NC_007497.1 + 3188 0.68 0.497099
Target:  5'- aGCUGGGgcagCGGCAUCGAacaGCUcGCGAu -3'
miRNA:   3'- gCGACCCg---GCUGUGGUUg--UGAaCGCU- -5'
33140 3' -56.3 NC_007497.1 + 42817 0.68 0.486704
Target:  5'- aCGCUGccCCGACGCCGcCGCgaUGCGGc -3'
miRNA:   3'- -GCGACccGGCUGUGGUuGUGa-ACGCU- -5'
33140 3' -56.3 NC_007497.1 + 8329 0.68 0.486704
Target:  5'- gCGCUGcGGCuCGGCAg-GACGCUUGcCGAg -3'
miRNA:   3'- -GCGAC-CCG-GCUGUggUUGUGAAC-GCU- -5'
33140 3' -56.3 NC_007497.1 + 16206 0.68 0.476413
Target:  5'- cCGUgUGGGCCGcCGCCGAgGCUgugUGCu- -3'
miRNA:   3'- -GCG-ACCCGGCuGUGGUUgUGA---ACGcu -5'
33140 3' -56.3 NC_007497.1 + 7799 0.68 0.466231
Target:  5'- aGCaGGGCCu--GCCGAC-CUUGCGGg -3'
miRNA:   3'- gCGaCCCGGcugUGGUUGuGAACGCU- -5'
33140 3' -56.3 NC_007497.1 + 28003 0.68 0.446214
Target:  5'- gCGCUgaugcGGGCUGcucgucCGCCGGCGCgggUGCGGg -3'
miRNA:   3'- -GCGA-----CCCGGCu-----GUGGUUGUGa--ACGCU- -5'
33140 3' -56.3 NC_007497.1 + 33419 0.69 0.433462
Target:  5'- cCGCguccgaUGGGCCagcgcaggcgcauuGACGCCGAUACgcGCGAc -3'
miRNA:   3'- -GCG------ACCCGG--------------CUGUGGUUGUGaaCGCU- -5'
33140 3' -56.3 NC_007497.1 + 21284 0.69 0.426684
Target:  5'- uGCUGGGCgCGGCGgCgGGCGCcgGCGu -3'
miRNA:   3'- gCGACCCG-GCUGU-GgUUGUGaaCGCu -5'
33140 3' -56.3 NC_007497.1 + 28779 0.69 0.417112
Target:  5'- gGCcGGGCUGAUgcggGCuCAACAUUUGCGc -3'
miRNA:   3'- gCGaCCCGGCUG----UG-GUUGUGAACGCu -5'
33140 3' -56.3 NC_007497.1 + 4550 0.7 0.353937
Target:  5'- gGCgGGucuGCCGACGuCCGACGCguugGCGAa -3'
miRNA:   3'- gCGaCC---CGGCUGU-GGUUGUGaa--CGCU- -5'
33140 3' -56.3 NC_007497.1 + 40845 0.71 0.329008
Target:  5'- uGC-GGGUCGACGCCGGCACgaa-GAa -3'
miRNA:   3'- gCGaCCCGGCUGUGGUUGUGaacgCU- -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.