miRNA display CGI


Results 21 - 37 of 37 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
11516 3' -58.6 NC_003085.1 + 32132 0.66 0.537637
Target:  5'- -gGUGCGaCGggggCGgCUGguGgcGCGGUg -3'
miRNA:   3'- ggCACGC-GCa---GCgGACguCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 32941 0.69 0.364864
Target:  5'- aCCG-GCucaacagGCG-CGCCUGCcauGcUUGCGGCg -3'
miRNA:   3'- -GGCaCG-------CGCaGCGGACGu--C-AACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 33945 0.69 0.36571
Target:  5'- cCCGaugGCGaacgaGUCGCCgUGCAGUUGacuacgugGGCc -3'
miRNA:   3'- -GGCa--CGCg----CAGCGG-ACGUCAACg-------CCG- -5'
11516 3' -58.6 NC_003085.1 + 36443 0.69 0.36571
Target:  5'- aCCGUGCggaggGCGgCGCCUcauggcgagGUAGUgccacugGCGGCu -3'
miRNA:   3'- -GGCACG-----CGCaGCGGA---------CGUCAa------CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 37324 0.67 0.437574
Target:  5'- aCGUGUggucuGCGaCGCCUGCcuugagcGCGGCg -3'
miRNA:   3'- gGCACG-----CGCaGCGGACGucaa---CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 37974 0.68 0.418847
Target:  5'- -gGUGCGCcaugucagCGUCUGCGGcgGUGGUg -3'
miRNA:   3'- ggCACGCGca------GCGGACGUCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 38927 0.67 0.476412
Target:  5'- gCUGUcGcCGCG-CGCCgucGCAGUgggacgacGCGGCa -3'
miRNA:   3'- -GGCA-C-GCGCaGCGGa--CGUCAa-------CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 39497 0.66 0.543919
Target:  5'- -gGUGCGgGaaUCGCCUGCAGgcugGauacgagccuggaGGCg -3'
miRNA:   3'- ggCACGCgC--AGCGGACGUCaa--Cg------------CCG- -5'
11516 3' -58.6 NC_003085.1 + 40334 0.68 0.400616
Target:  5'- gCUG-GCGCGU-GCCU-CAGUggGCGGUg -3'
miRNA:   3'- -GGCaCGCGCAgCGGAcGUCAa-CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 41021 0.74 0.158965
Target:  5'- gCCGUGgGCGUCGCUgGCGuccuccuggGCGGCu -3'
miRNA:   3'- -GGCACgCGCAGCGGaCGUcaa------CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 42079 0.68 0.409668
Target:  5'- uCCGUGcCGaCGcCGCCgggGCAGgaacaCGGCg -3'
miRNA:   3'- -GGCAC-GC-GCaGCGGa--CGUCaac--GCCG- -5'
11516 3' -58.6 NC_003085.1 + 42730 0.71 0.254239
Target:  5'- gCGUGgGCGUCGgggcgaUGCGGgcGCGGUg -3'
miRNA:   3'- gGCACgCGCAGCgg----ACGUCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 44319 0.68 0.418847
Target:  5'- uCCGaGCGCGacgCgGCCcgGCAGgaaGCGGCc -3'
miRNA:   3'- -GGCaCGCGCa--G-CGGa-CGUCaa-CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 45822 0.68 0.427214
Target:  5'- aCCaGUGCaGCGUCccucucgGCCaGcCAGUcGCGGCg -3'
miRNA:   3'- -GG-CACG-CGCAG-------CGGaC-GUCAaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 46894 0.68 0.42815
Target:  5'- cCCGUGgGCuugugaagGUCGUCaccGCGGcagGCGGCa -3'
miRNA:   3'- -GGCACgCG--------CAGCGGa--CGUCaa-CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 48497 0.66 0.495451
Target:  5'- gCCGUccaugcggaggaaGCcaGCGcCGCCgagGCAGacaaUGCGGCg -3'
miRNA:   3'- -GGCA-------------CG--CGCaGCGGa--CGUCa---ACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 48944 0.71 0.260716
Target:  5'- uCCGUGUGCGgCGaCUGCAagcccGUcGCGGCc -3'
miRNA:   3'- -GGCACGCGCaGCgGACGU-----CAaCGCCG- -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.