miRNA display CGI


Results 1 - 17 of 17 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
11867 3' -60.9 NC_003266.2 + 17019 0.66 0.328597
Target:  5'- gGGCGGCaGCGGGagUUgCAGCUgUGCGg -3'
miRNA:   3'- -UCGCCG-CGUCUguGAgGUCGAgGCGC- -5'
11867 3' -60.9 NC_003266.2 + 9129 0.66 0.305255
Target:  5'- uGGUGGCGCGcaccucGCGCUCgaaGGCUCC-CGg -3'
miRNA:   3'- -UCGCCGCGUc-----UGUGAGg--UCGAGGcGC- -5'
11867 3' -60.9 NC_003266.2 + 5414 0.66 0.297762
Target:  5'- cGGgGGCGUAGGCG-UCC-GCgCCGCa -3'
miRNA:   3'- -UCgCCGCGUCUGUgAGGuCGaGGCGc -5'
11867 3' -60.9 NC_003266.2 + 26986 0.66 0.283206
Target:  5'- uGGUGGCGCGGcugAC-CUAGCUCgGCu -3'
miRNA:   3'- -UCGCCGCGUCug-UGaGGUCGAGgCGc -5'
11867 3' -60.9 NC_003266.2 + 15877 0.67 0.276142
Target:  5'- cGGCGGCaGCGGcCAUagCCAGCaugucccgcCCGCGg -3'
miRNA:   3'- -UCGCCG-CGUCuGUGa-GGUCGa--------GGCGC- -5'
11867 3' -60.9 NC_003266.2 + 30490 0.67 0.269219
Target:  5'- gAGUGGCGCAGcUGCUCaGGCUCaucugauaagcaUGCGg -3'
miRNA:   3'- -UCGCCGCGUCuGUGAGgUCGAG------------GCGC- -5'
11867 3' -60.9 NC_003266.2 + 12300 0.67 0.262437
Target:  5'- uAGCGG-GCcacGCGCUCCAGCagUGCGu -3'
miRNA:   3'- -UCGCCgCGuc-UGUGAGGUCGagGCGC- -5'
11867 3' -60.9 NC_003266.2 + 15814 0.68 0.230596
Target:  5'- gGGCGGC-CAGACGCg-CGGCUUCagGCGc -3'
miRNA:   3'- -UCGCCGcGUCUGUGagGUCGAGG--CGC- -5'
11867 3' -60.9 NC_003266.2 + 11553 0.68 0.224633
Target:  5'- cAGCGGCaGCccGCGCUCCugcaccacgauGCUCUGCa -3'
miRNA:   3'- -UCGCCG-CGucUGUGAGGu----------CGAGGCGc -5'
11867 3' -60.9 NC_003266.2 + 15714 0.68 0.213098
Target:  5'- cGGCGGCGCAu-CGC-CCGGCggcaCCGUa -3'
miRNA:   3'- -UCGCCGCGUcuGUGaGGUCGa---GGCGc -5'
11867 3' -60.9 NC_003266.2 + 5392 0.68 0.206974
Target:  5'- uGUGG-GCAGAC-UUCCaaagguaAGCUCCGCGc -3'
miRNA:   3'- uCGCCgCGUCUGuGAGG-------UCGAGGCGC- -5'
11867 3' -60.9 NC_003266.2 + 8734 0.69 0.202077
Target:  5'- cGCGGC-CGGcGCGCUCCacGGUggCCGCGa -3'
miRNA:   3'- uCGCCGcGUC-UGUGAGG--UCGa-GGCGC- -5'
11867 3' -60.9 NC_003266.2 + 33367 0.69 0.196754
Target:  5'- gAGCGGCGCAGACAgcgaCuGCUgCGgGg -3'
miRNA:   3'- -UCGCCGCGUCUGUgag-GuCGAgGCgC- -5'
11867 3' -60.9 NC_003266.2 + 5473 0.69 0.196228
Target:  5'- uGCGGCGCGGACGC-CUAcGCccccgagUCCGUc -3'
miRNA:   3'- uCGCCGCGUCUGUGaGGU-CG-------AGGCGc -5'
11867 3' -60.9 NC_003266.2 + 17291 0.7 0.162826
Target:  5'- uGGCGGUGCAGGC-CUCuCAGCgCCa-- -3'
miRNA:   3'- -UCGCCGCGUCUGuGAG-GUCGaGGcgc -5'
11867 3' -60.9 NC_003266.2 + 15513 0.73 0.093115
Target:  5'- cGCGuGCGCGGGCACuUCCGcGCUCCcugggGCGc -3'
miRNA:   3'- uCGC-CGCGUCUGUG-AGGU-CGAGG-----CGC- -5'
11867 3' -60.9 NC_003266.2 + 24403 1.09 0.000153
Target:  5'- aAGCGGCGCAGACACUCCAGCUCCGCGg -3'
miRNA:   3'- -UCGCCGCGUCUGUGAGGUCGAGGCGC- -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.