miRNA display CGI


Results 1 - 20 of 29 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
22713 3' -56.6 NC_005091.1 + 32033 0.66 0.648981
Target:  5'- -cGUCgccuugGCG-AGCGACGCG-AGCaGCa -3'
miRNA:   3'- uuCAGa-----CGCaUCGCUGUGCgUCGcCG- -5'
22713 3' -56.6 NC_005091.1 + 6180 0.66 0.648981
Target:  5'- gGGGcUUGCG-GGCGACGaGCcgaAGCGGCg -3'
miRNA:   3'- -UUCaGACGCaUCGCUGUgCG---UCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 13888 0.66 0.637987
Target:  5'- cGGUCaGCacgacgcucGUuGCGGCA-GCAGCGGCc -3'
miRNA:   3'- uUCAGaCG---------CAuCGCUGUgCGUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 41052 0.66 0.637987
Target:  5'- gGAGgc-GCGcAGCG-CACGCAGCgcugGGCg -3'
miRNA:   3'- -UUCagaCGCaUCGCuGUGCGUCG----CCG- -5'
22713 3' -56.6 NC_005091.1 + 50620 0.66 0.626988
Target:  5'- -cGcCUGUGUuGaCG-UACGCGGCGGCc -3'
miRNA:   3'- uuCaGACGCAuC-GCuGUGCGUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 15275 0.66 0.605013
Target:  5'- -cGUUUGUGaagAGCGGgucaACGCAcGCGGCc -3'
miRNA:   3'- uuCAGACGCa--UCGCUg---UGCGU-CGCCG- -5'
22713 3' -56.6 NC_005091.1 + 9892 0.66 0.605013
Target:  5'- cGAG-CgcagGaUGUGGUGaauucGCGCGCAGCGGCc -3'
miRNA:   3'- -UUCaGa---C-GCAUCGC-----UGUGCGUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 27329 0.66 0.594056
Target:  5'- cGGaCUGCGgcGCGACGC-CAGCcucuugauGGCc -3'
miRNA:   3'- uUCaGACGCauCGCUGUGcGUCG--------CCG- -5'
22713 3' -56.6 NC_005091.1 + 52223 0.67 0.583131
Target:  5'- cGGUagUGCGgGGCGGCuuUGaCAGCGGCu -3'
miRNA:   3'- uUCAg-ACGCaUCGCUGu-GC-GUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 52287 0.67 0.583131
Target:  5'- uAGUgUGCGUuGCGGaucgauuCGaCAGCGGCc -3'
miRNA:   3'- uUCAgACGCAuCGCUgu-----GC-GUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 55416 0.67 0.561412
Target:  5'- cGGUCUcGCccacuucgAGCGcgaGCACGCGgGCGGCa -3'
miRNA:   3'- uUCAGA-CGca------UCGC---UGUGCGU-CGCCG- -5'
22713 3' -56.6 NC_005091.1 + 43230 0.67 0.560331
Target:  5'- -cGUC-GCG-AGUGGCAUGCgaaagaaAGCGGCc -3'
miRNA:   3'- uuCAGaCGCaUCGCUGUGCG-------UCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 21394 0.67 0.549559
Target:  5'- ---cCUGaCG-GGCGGCcucgcguACGCGGCGGCg -3'
miRNA:   3'- uucaGAC-GCaUCGCUG-------UGCGUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 6872 0.68 0.529277
Target:  5'- -uGUCUcCGUcGC-ACGCGCAGCGGa -3'
miRNA:   3'- uuCAGAcGCAuCGcUGUGCGUCGCCg -5'
22713 3' -56.6 NC_005091.1 + 24112 0.68 0.518712
Target:  5'- cGGUCUGCGUGGCGAucuguuugaaccCAuccacugcCGaCAGCGuGCc -3'
miRNA:   3'- uUCAGACGCAUCGCU------------GU--------GC-GUCGC-CG- -5'
22713 3' -56.6 NC_005091.1 + 17445 0.68 0.518712
Target:  5'- uGGUCUGCGU-GCGGaACuGCA-CGGCg -3'
miRNA:   3'- uUCAGACGCAuCGCUgUG-CGUcGCCG- -5'
22713 3' -56.6 NC_005091.1 + 26400 0.68 0.497842
Target:  5'- cGGUCUGCu--GCGGCAgcCGCAGCcuGCg -3'
miRNA:   3'- uUCAGACGcauCGCUGU--GCGUCGc-CG- -5'
22713 3' -56.6 NC_005091.1 + 51577 0.68 0.477357
Target:  5'- -uGUCgUGCGUcGCGugacggGCGCGCAgaagcGCGGCa -3'
miRNA:   3'- uuCAG-ACGCAuCGC------UGUGCGU-----CGCCG- -5'
22713 3' -56.6 NC_005091.1 + 24152 0.69 0.467271
Target:  5'- ---cUUGCGcagaUGGCGAaagAUGCAGCGGCg -3'
miRNA:   3'- uucaGACGC----AUCGCUg--UGCGUCGCCG- -5'
22713 3' -56.6 NC_005091.1 + 3451 0.69 0.447438
Target:  5'- ---aUUGCagAGCGACACG-AGCGGCa -3'
miRNA:   3'- uucaGACGcaUCGCUGUGCgUCGCCG- -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.