miRNA display CGI


Results 1 - 20 of 33 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
28045 3' -61.8 NC_005887.1 + 12314 0.66 0.329818
Target:  5'- cGCUCGCCuaugagGGUgGC-GUCGGCGCGu -3'
miRNA:   3'- cUGAGCGGca----CCGaCGaCGGCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 21809 0.66 0.329818
Target:  5'- cGACgu-CCGcGGC-GCUGCCgGGCGCGc -3'
miRNA:   3'- -CUGagcGGCaCCGaCGACGG-CCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 2624 0.66 0.329818
Target:  5'- uACUCGCaCGUGGCcgagGCgagucaguaccUGCUggugGGCGCGg -3'
miRNA:   3'- cUGAGCG-GCACCGa---CG-----------ACGG----CCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 26332 0.66 0.329818
Target:  5'- ----gGCCGUGGCcgGCgcugGCCGgguGCGCGa -3'
miRNA:   3'- cugagCGGCACCGa-CGa---CGGC---CGUGC- -5'
28045 3' -61.8 NC_005887.1 + 28335 0.66 0.314325
Target:  5'- cGGCgCGCCGgcGGUUGCggaggcGCgCGGCGCa -3'
miRNA:   3'- -CUGaGCGGCa-CCGACGa-----CG-GCCGUGc -5'
28045 3' -61.8 NC_005887.1 + 41599 0.66 0.306788
Target:  5'- cGGCg-GCCcaGGUgcgGCgGCCGGCGCGg -3'
miRNA:   3'- -CUGagCGGcaCCGa--CGaCGGCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 22775 0.66 0.306788
Target:  5'- uGCUCGU--UGGCU-CgacGCCGGCGCGg -3'
miRNA:   3'- cUGAGCGgcACCGAcGa--CGGCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 8000 0.66 0.298657
Target:  5'- cGCUCgucuccaGCCGUGGCcgGC-GCCacGGCACa -3'
miRNA:   3'- cUGAG-------CGGCACCGa-CGaCGG--CCGUGc -5'
28045 3' -61.8 NC_005887.1 + 7192 0.66 0.289978
Target:  5'- cGACUCGCuucucgaauucucgCGUGcGCaggcGCUGUCGGCGuCGg -3'
miRNA:   3'- -CUGAGCG--------------GCAC-CGa---CGACGGCCGU-GC- -5'
28045 3' -61.8 NC_005887.1 + 30447 0.67 0.278024
Target:  5'- aGACgugagcccCGCCGUGaa-GUUGCCGGCGCu -3'
miRNA:   3'- -CUGa-------GCGGCACcgaCGACGGCCGUGc -5'
28045 3' -61.8 NC_005887.1 + 12147 0.67 0.271178
Target:  5'- cGACgCGgCGUGGCUG--GCCGGCGa- -3'
miRNA:   3'- -CUGaGCgGCACCGACgaCGGCCGUgc -5'
28045 3' -61.8 NC_005887.1 + 17671 0.67 0.271178
Target:  5'- -cCUCGCCGcgcuUGGCgac-GUCGGCACGa -3'
miRNA:   3'- cuGAGCGGC----ACCGacgaCGGCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 39163 0.67 0.257892
Target:  5'- -uCUCGCUGUccgggcgcGGCaGCUGCCcgaacuugucgaGGCGCGg -3'
miRNA:   3'- cuGAGCGGCA--------CCGaCGACGG------------CCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 1578 0.67 0.257892
Target:  5'- cGAC-CGCCGgcucGGCgGC-GCgCGGCGCGc -3'
miRNA:   3'- -CUGaGCGGCa---CCGaCGaCG-GCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 17637 0.67 0.257892
Target:  5'- cGACggucagCGCCGUGaa-GCUGCagGGCACGa -3'
miRNA:   3'- -CUGa-----GCGGCACcgaCGACGg-CCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 30264 0.68 0.238968
Target:  5'- cGCUUGCCGUccGGC-GCgacgaucgUGCCGcGCACGa -3'
miRNA:   3'- cUGAGCGGCA--CCGaCG--------ACGGC-CGUGC- -5'
28045 3' -61.8 NC_005887.1 + 14613 0.68 0.232923
Target:  5'- cGGCcgucggCGCCGUcgagGGCgcgcucacgGCaGCCGGCGCGg -3'
miRNA:   3'- -CUGa-----GCGGCA----CCGa--------CGaCGGCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 41957 0.68 0.227007
Target:  5'- uGCUCG-CGUGG-UGCgUGCgCGGCGCGc -3'
miRNA:   3'- cUGAGCgGCACCgACG-ACG-GCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 37765 0.68 0.221218
Target:  5'- aACUUGCCGUcGUcGUUGCgCGGCAUGg -3'
miRNA:   3'- cUGAGCGGCAcCGaCGACG-GCCGUGC- -5'
28045 3' -61.8 NC_005887.1 + 15069 0.68 0.221218
Target:  5'- gGugUCGCCGaaGGgaGCcGCCGGCGu- -3'
miRNA:   3'- -CugAGCGGCa-CCgaCGaCGGCCGUgc -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.