miRNA display CGI


Results 1 - 20 of 20 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
12524 3' -48.5 NC_003345.1 + 52154 0.65 0.988491
Target:  5'- gAUgAGCuugaGACUCcccGCAUCGagucgggUUCUCGCCg -3'
miRNA:   3'- -UAgUCG----UUGAGu--CGUAGU-------AAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 61606 0.66 0.985122
Target:  5'- gGUCAGCGGCUUgaGGUagagaGUCAgacUCUCcCCg -3'
miRNA:   3'- -UAGUCGUUGAG--UCG-----UAGUa--AGAGuGG- -5'
12524 3' -48.5 NC_003345.1 + 29640 0.66 0.985122
Target:  5'- uAUCGGgAACcCGGuCGUCGUUCUCGa- -3'
miRNA:   3'- -UAGUCgUUGaGUC-GUAGUAAGAGUgg -5'
12524 3' -48.5 NC_003345.1 + 70275 0.66 0.980814
Target:  5'- gGUCGGCAAggucgUCAGCcUCcaUCUCAUCg -3'
miRNA:   3'- -UAGUCGUUg----AGUCGuAGuaAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 21972 0.66 0.980814
Target:  5'- aAUCAccGCAucgaggucguACUCGGCGUCAccgacUUCACCa -3'
miRNA:   3'- -UAGU--CGU----------UGAGUCGUAGUaa---GAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 63195 0.67 0.975635
Target:  5'- --uGGCAACUCGGC-----UCUCGCUg -3'
miRNA:   3'- uagUCGUUGAGUCGuaguaAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 47336 0.67 0.972693
Target:  5'- uUCgAGaCGGCUCAGCAggcCGcUCUCAUCu -3'
miRNA:   3'- uAG-UC-GUUGAGUCGUa--GUaAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 57225 0.67 0.969503
Target:  5'- -aCGGuCAGCUcCGGUAUUcUUCUCGCUg -3'
miRNA:   3'- uaGUC-GUUGA-GUCGUAGuAAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 50215 0.68 0.962341
Target:  5'- gGUgAGCGAaaauaUCAGCggCAgUCUCACUa -3'
miRNA:   3'- -UAgUCGUUg----AGUCGuaGUaAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 28529 0.68 0.962341
Target:  5'- -cCAuCAACUCGGCAuacgucUCAggacgCUCGCCg -3'
miRNA:   3'- uaGUcGUUGAGUCGU------AGUaa---GAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 74474 0.68 0.954086
Target:  5'- uAUCgAGCAACgcaucaacgUCAGCAUCGcUCUCAg- -3'
miRNA:   3'- -UAG-UCGUUG---------AGUCGUAGUaAGAGUgg -5'
12524 3' -48.5 NC_003345.1 + 2245 0.68 0.944688
Target:  5'- uUC-GCAccACUUAGCgauGUCAcUCUCGCCg -3'
miRNA:   3'- uAGuCGU--UGAGUCG---UAGUaAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 22929 0.68 0.944688
Target:  5'- cGUCAGCucCUCggaAGCGUCGaugCUCACa -3'
miRNA:   3'- -UAGUCGuuGAG---UCGUAGUaa-GAGUGg -5'
12524 3' -48.5 NC_003345.1 + 4031 0.68 0.944688
Target:  5'- gGUCGGCucuCUCGGC-UCGUUCgaggUCACa -3'
miRNA:   3'- -UAGUCGuu-GAGUCGuAGUAAG----AGUGg -5'
12524 3' -48.5 NC_003345.1 + 70699 0.7 0.909371
Target:  5'- -cCGGUucaUCAGCAUCAguUUCUCgACCg -3'
miRNA:   3'- uaGUCGuugAGUCGUAGU--AAGAG-UGG- -5'
12524 3' -48.5 NC_003345.1 + 62698 0.7 0.895217
Target:  5'- cGUCAGCAAUUCgAGCGcccUCGcUUUCAUCa -3'
miRNA:   3'- -UAGUCGUUGAG-UCGU---AGUaAGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 33512 0.71 0.87184
Target:  5'- cUCGGC-GCUCAGggaGUCGUccuucuucaUCUCGCCa -3'
miRNA:   3'- uAGUCGuUGAGUCg--UAGUA---------AGAGUGG- -5'
12524 3' -48.5 NC_003345.1 + 67142 0.72 0.808281
Target:  5'- cGUCGGaCGGgUCGGgGUCGUUCcCACCa -3'
miRNA:   3'- -UAGUC-GUUgAGUCgUAGUAAGaGUGG- -5'
12524 3' -48.5 NC_003345.1 + 70060 0.73 0.777819
Target:  5'- cUCAGCgAACUCAGCAagAagCUCACg -3'
miRNA:   3'- uAGUCG-UUGAGUCGUagUaaGAGUGg -5'
12524 3' -48.5 NC_003345.1 + 16617 1.12 0.003898
Target:  5'- aAUCAGCAACUCAGCAUCAUUCUCACCa -3'
miRNA:   3'- -UAGUCGUUGAGUCGUAGUAAGAGUGG- -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.