miRNA display CGI


Results 1 - 20 of 51 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
23248 3' -61.2 NC_005259.1 + 47028 0.66 0.478594
Target:  5'- aCCGCcuccaGCagGCCGGGGaUCUGCGCGAg -3'
miRNA:   3'- -GGCGa----CGg-CGGCUCUcGGACGUGCUa -5'
23248 3' -61.2 NC_005259.1 + 8876 0.66 0.478594
Target:  5'- gCCGCacccacGCCGCCuGAGcgucacgcucGGCCUGCugACGGg -3'
miRNA:   3'- -GGCGa-----CGGCGG-CUC----------UCGGACG--UGCUa -5'
23248 3' -61.2 NC_005259.1 + 18665 0.66 0.477626
Target:  5'- aUGCcGCCGCCcgaguacgucaucGAGGGUCUGCuuGAg -3'
miRNA:   3'- gGCGaCGGCGG-------------CUCUCGGACGugCUa -5'
23248 3' -61.2 NC_005259.1 + 46780 0.66 0.468957
Target:  5'- gCCGCgcccGCCggGCCGAacaccGAGCCUGCgaGCGc- -3'
miRNA:   3'- -GGCGa---CGG--CGGCU-----CUCGGACG--UGCua -5'
23248 3' -61.2 NC_005259.1 + 17755 0.66 0.468957
Target:  5'- uCCGUgagGCCGCCGcgcgccGGGCCgagcGCAcCGAg -3'
miRNA:   3'- -GGCGa--CGGCGGCu-----CUCGGa---CGU-GCUa -5'
23248 3' -61.2 NC_005259.1 + 53266 0.66 0.468957
Target:  5'- gCCGCUGUCGCCG-GuGCC-GCcaaGAUc -3'
miRNA:   3'- -GGCGACGGCGGCuCuCGGaCGug-CUA- -5'
23248 3' -61.2 NC_005259.1 + 18455 0.66 0.468957
Target:  5'- aCCGCgcacaCCGCCGGuccuGAGCCgUGCcCGAc -3'
miRNA:   3'- -GGCGac---GGCGGCU----CUCGG-ACGuGCUa -5'
23248 3' -61.2 NC_005259.1 + 45004 0.66 0.468957
Target:  5'- aCCGCcGaCCGCCG-GGGCC-GCGCc-- -3'
miRNA:   3'- -GGCGaC-GGCGGCuCUCGGaCGUGcua -5'
23248 3' -61.2 NC_005259.1 + 37252 0.66 0.45942
Target:  5'- -gGCUGCCGCCGuu-GCCagGCuuGAg -3'
miRNA:   3'- ggCGACGGCGGCucuCGGa-CGugCUa -5'
23248 3' -61.2 NC_005259.1 + 27523 0.66 0.45942
Target:  5'- uCCGCacacGCCGUCGAG-GCCccacgGCGgGAUg -3'
miRNA:   3'- -GGCGa---CGGCGGCUCuCGGa----CGUgCUA- -5'
23248 3' -61.2 NC_005259.1 + 41404 0.66 0.458472
Target:  5'- gCGC-GCCGCuCGGGGuGCCcacgaugUGCACGGg -3'
miRNA:   3'- gGCGaCGGCG-GCUCU-CGG-------ACGUGCUa -5'
23248 3' -61.2 NC_005259.1 + 24341 0.66 0.449988
Target:  5'- gCGCUGgccuaCCGCCGGGuGCUcGCACa-- -3'
miRNA:   3'- gGCGAC-----GGCGGCUCuCGGaCGUGcua -5'
23248 3' -61.2 NC_005259.1 + 1374 0.66 0.449988
Target:  5'- gCCGC-GCCGCCcgcGAG-GCCcgcGCAUGAg -3'
miRNA:   3'- -GGCGaCGGCGG---CUCuCGGa--CGUGCUa -5'
23248 3' -61.2 NC_005259.1 + 39910 0.66 0.440663
Target:  5'- cCCGCcucgauCCGUCGAGGGCC-GCGuCGAg -3'
miRNA:   3'- -GGCGac----GGCGGCUCUCGGaCGU-GCUa -5'
23248 3' -61.2 NC_005259.1 + 40640 0.66 0.440663
Target:  5'- aUGCcGUCGCCGAGAaagucaugcucGCCgagcaGCGCGAg -3'
miRNA:   3'- gGCGaCGGCGGCUCU-----------CGGa----CGUGCUa -5'
23248 3' -61.2 NC_005259.1 + 14971 0.66 0.437887
Target:  5'- gCGCauucaagGCCGCCGGGuacaagacacagcaGGCCggGUACGAg -3'
miRNA:   3'- gGCGa------CGGCGGCUC--------------UCGGa-CGUGCUa -5'
23248 3' -61.2 NC_005259.1 + 50901 0.66 0.431449
Target:  5'- aCCGCUGCgugcgauagCGCCGcauGAGCC-GCACc-- -3'
miRNA:   3'- -GGCGACG---------GCGGCu--CUCGGaCGUGcua -5'
23248 3' -61.2 NC_005259.1 + 64687 0.66 0.425975
Target:  5'- gCCGC-GCCGCCGAGcgauacccacauaccGaugcaccacggGCaCUGCACGAa -3'
miRNA:   3'- -GGCGaCGGCGGCUC---------------U-----------CG-GACGUGCUa -5'
23248 3' -61.2 NC_005259.1 + 34446 0.66 0.422348
Target:  5'- -aGCUGCCGaCCGGGcAGCgUGuCGCuGAUg -3'
miRNA:   3'- ggCGACGGC-GGCUC-UCGgAC-GUG-CUA- -5'
23248 3' -61.2 NC_005259.1 + 1879 0.66 0.422348
Target:  5'- uCCGUaagcagGCCGCCGAGA-UC-GCGCGAg -3'
miRNA:   3'- -GGCGa-----CGGCGGCUCUcGGaCGUGCUa -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.