miRNA display CGI


Results 1 - 20 of 26 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
23128 5' -60.3 NC_005178.1 + 6809 0.66 0.348767
Target:  5'- uGCCCuGCUGCCGauccGCCGccucauugCCUGG-Ca -3'
miRNA:   3'- -CGGG-CGACGGC----CGGCaaa-----GGACCuGa -5'
23128 5' -60.3 NC_005178.1 + 21342 0.66 0.348767
Target:  5'- uGCCCGCUGCggcaUGGCCGaggCC-GGuCa -3'
miRNA:   3'- -CGGGCGACG----GCCGGCaaaGGaCCuGa -5'
23128 5' -60.3 NC_005178.1 + 12945 0.66 0.324453
Target:  5'- cGCCaGgUGCUGGCCGg--CCUGGu-- -3'
miRNA:   3'- -CGGgCgACGGCCGGCaaaGGACCuga -5'
23128 5' -60.3 NC_005178.1 + 25336 0.66 0.324453
Target:  5'- gGCCaggCGCUggaaaagaGCCGcGCUGgugUCCUGGACc -3'
miRNA:   3'- -CGG---GCGA--------CGGC-CGGCaa-AGGACCUGa -5'
23128 5' -60.3 NC_005178.1 + 2978 0.67 0.312011
Target:  5'- cGCCCgagcgcggaugGCUGCCGaGCgugcgcagccuggagCGcUUCCUGGACc -3'
miRNA:   3'- -CGGG-----------CGACGGC-CG---------------GCaAAGGACCUGa -5'
23128 5' -60.3 NC_005178.1 + 31461 0.67 0.308957
Target:  5'- -aCCGCUGgCGGCCGgcUCgCUGaACa -3'
miRNA:   3'- cgGGCGACgGCCGGCaaAG-GACcUGa -5'
23128 5' -60.3 NC_005178.1 + 6089 0.67 0.301423
Target:  5'- uGUUCaGCgaGCCGGCCGccagcggUUCCUGGAg- -3'
miRNA:   3'- -CGGG-CGa-CGGCCGGCa------AAGGACCUga -5'
23128 5' -60.3 NC_005178.1 + 32617 0.67 0.286783
Target:  5'- cGgCCGCUGgCGGCCagUUCCUcGGCg -3'
miRNA:   3'- -CgGGCGACgGCCGGcaAAGGAcCUGa -5'
23128 5' -60.3 NC_005178.1 + 12308 0.67 0.286783
Target:  5'- uCgCGCUGCCuGCCGcUUUCCUGcuGGCg -3'
miRNA:   3'- cGgGCGACGGcCGGC-AAAGGAC--CUGa -5'
23128 5' -60.3 NC_005178.1 + 13017 0.67 0.284635
Target:  5'- aGCCCGCcgugaaggugcagcUGCUGGCCag--CCUGGcCg -3'
miRNA:   3'- -CGGGCG--------------ACGGCCGGcaaaGGACCuGa -5'
23128 5' -60.3 NC_005178.1 + 23258 0.68 0.272708
Target:  5'- aUCCGCUuGCCGgaGCCGaagaCCUGGACc -3'
miRNA:   3'- cGGGCGA-CGGC--CGGCaaa-GGACCUGa -5'
23128 5' -60.3 NC_005178.1 + 15280 0.68 0.272708
Target:  5'- cGCCCGCcGCCuGGCgGgccagCCUGG-Cg -3'
miRNA:   3'- -CGGGCGaCGG-CCGgCaaa--GGACCuGa -5'
23128 5' -60.3 NC_005178.1 + 18847 0.68 0.259193
Target:  5'- cGUgCGCUuggcuugaGCUGGCCGUUUCUgaGGACc -3'
miRNA:   3'- -CGgGCGA--------CGGCCGGCAAAGGa-CCUGa -5'
23128 5' -60.3 NC_005178.1 + 14090 0.68 0.259193
Target:  5'- gGCCgGCUucgcgccgggcGCCcuGGCCGUcgcCCUGGGCg -3'
miRNA:   3'- -CGGgCGA-----------CGG--CCGGCAaa-GGACCUGa -5'
23128 5' -60.3 NC_005178.1 + 6772 0.68 0.252643
Target:  5'- -aCCGCUGCCaGGCgGaugUCCUGGuucaGCUc -3'
miRNA:   3'- cgGGCGACGG-CCGgCaa-AGGACC----UGA- -5'
23128 5' -60.3 NC_005178.1 + 22158 0.68 0.24623
Target:  5'- cGCgCUGCUGCCGGUuaCGgcUUCUGGcaGCUg -3'
miRNA:   3'- -CG-GGCGACGGCCG--GCaaAGGACC--UGA- -5'
23128 5' -60.3 NC_005178.1 + 33928 0.69 0.227798
Target:  5'- cGgCCGgUGCCGGCU--UUCCgGGGCg -3'
miRNA:   3'- -CgGGCgACGGCCGGcaAAGGaCCUGa -5'
23128 5' -60.3 NC_005178.1 + 11908 0.69 0.216169
Target:  5'- gGCCUGCUGCCGGUCGaa--CUcGGCg -3'
miRNA:   3'- -CGGGCGACGGCCGGCaaagGAcCUGa -5'
23128 5' -60.3 NC_005178.1 + 25176 0.69 0.216169
Target:  5'- aGCCaagGCcGCCGGuaGUggCCUGGGCg -3'
miRNA:   3'- -CGGg--CGaCGGCCggCAaaGGACCUGa -5'
23128 5' -60.3 NC_005178.1 + 34180 0.69 0.210547
Target:  5'- gGCCgGaaggGCCGGCCGUgcaucgggUgCUGGACc -3'
miRNA:   3'- -CGGgCga--CGGCCGGCAa-------AgGACCUGa -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.