miRNA display CGI


Results 1 - 20 of 24 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
28933 3' -53.9 NC_006146.1 + 1990 1.01 0.017673
Target:  5'- cGUCUCC-AGAACCUGCUGACAGUCGCg -3'
miRNA:   3'- -CAGAGGcUCUUGGACGACUGUCAGCG- -5'
28933 3' -53.9 NC_006146.1 + 40075 0.7 0.844036
Target:  5'- cGUCUCCcggcgGAGGGCCUGCagcgcgUGcuGCAGcUCGCu -3'
miRNA:   3'- -CAGAGG-----CUCUUGGACG------AC--UGUC-AGCG- -5'
28933 3' -53.9 NC_006146.1 + 41058 0.66 0.964728
Target:  5'- -cUUCCGAGGGCUcGCUcgGACGGgggCGUg -3'
miRNA:   3'- caGAGGCUCUUGGaCGA--CUGUCa--GCG- -5'
28933 3' -53.9 NC_006146.1 + 43915 0.66 0.973686
Target:  5'- -gCUCCG-GGACCgcgucGCccGGCAGUCGg -3'
miRNA:   3'- caGAGGCuCUUGGa----CGa-CUGUCAGCg -5'
28933 3' -53.9 NC_006146.1 + 45949 0.66 0.973686
Target:  5'- cUCUCUGGGGACCUcgacGCUcucugcccggGGCAGcuccUCGCc -3'
miRNA:   3'- cAGAGGCUCUUGGA----CGA----------CUGUC----AGCG- -5'
28933 3' -53.9 NC_006146.1 + 49364 0.66 0.973686
Target:  5'- uUCUUgGAGcgcacGAUCUGCUGGaugguGUCGCg -3'
miRNA:   3'- cAGAGgCUC-----UUGGACGACUgu---CAGCG- -5'
28933 3' -53.9 NC_006146.1 + 50868 0.66 0.964728
Target:  5'- aGUCUCCGcgcGGggUCUGUgcccgGACuGgCGCg -3'
miRNA:   3'- -CAGAGGC---UCuuGGACGa----CUGuCaGCG- -5'
28933 3' -53.9 NC_006146.1 + 53729 0.71 0.792136
Target:  5'- cUCUCCGGGAGCCgcgGCUGcgcCGGg-GCg -3'
miRNA:   3'- cAGAGGCUCUUGGa--CGACu--GUCagCG- -5'
28933 3' -53.9 NC_006146.1 + 59280 0.71 0.801201
Target:  5'- cGUCUUCGcGGACCUggGCUGGCAGUa-- -3'
miRNA:   3'- -CAGAGGCuCUUGGA--CGACUGUCAgcg -5'
28933 3' -53.9 NC_006146.1 + 60380 0.67 0.945408
Target:  5'- gGUCUCCGAGGugcagcGCCUGgaGaACAucUGCa -3'
miRNA:   3'- -CAGAGGCUCU------UGGACgaC-UGUcaGCG- -5'
28933 3' -53.9 NC_006146.1 + 61281 0.69 0.882022
Target:  5'- gGUCUCaCGGGGGCCUGUcgcgUGuuuGCGG-CGCg -3'
miRNA:   3'- -CAGAG-GCUCUUGGACG----AC---UGUCaGCG- -5'
28933 3' -53.9 NC_006146.1 + 66275 0.71 0.810111
Target:  5'- gGUCUCgCGGGuccuCCUGaucaGAUAGUCGCg -3'
miRNA:   3'- -CAGAG-GCUCuu--GGACga--CUGUCAGCG- -5'
28933 3' -53.9 NC_006146.1 + 67030 0.68 0.908412
Target:  5'- cGUgUCCGGGAGCC----GACAGUCGg -3'
miRNA:   3'- -CAgAGGCUCUUGGacgaCUGUCAGCg -5'
28933 3' -53.9 NC_006146.1 + 81786 0.69 0.867464
Target:  5'- gGUCUCCGGGGgugccACCUGg-GGCAGU-GCc -3'
miRNA:   3'- -CAGAGGCUCU-----UGGACgaCUGUCAgCG- -5'
28933 3' -53.9 NC_006146.1 + 95683 0.67 0.949733
Target:  5'- cUCUuuGAGAuCCUGCagGGCAaGUaCGCc -3'
miRNA:   3'- cAGAggCUCUuGGACGa-CUGU-CA-GCG- -5'
28933 3' -53.9 NC_006146.1 + 95691 0.69 0.882022
Target:  5'- -aCUuuGGGAACCUG-UGACGGU-GCu -3'
miRNA:   3'- caGAggCUCUUGGACgACUGUCAgCG- -5'
28933 3' -53.9 NC_006146.1 + 101061 0.67 0.953824
Target:  5'- cUC-CCGAGGGCCacgggcucaUGCUGugGGgcagcacuUCGCg -3'
miRNA:   3'- cAGaGGCUCUUGG---------ACGACugUC--------AGCG- -5'
28933 3' -53.9 NC_006146.1 + 106421 0.66 0.972043
Target:  5'- gGUUggCCGAGAACCUcagaaaugcccuucaGCagGACAG-CGCc -3'
miRNA:   3'- -CAGa-GGCUCUUGGA---------------CGa-CUGUCaGCG- -5'
28933 3' -53.9 NC_006146.1 + 114669 0.66 0.970907
Target:  5'- -cCUCCGcccccgcGGACCcGCUgGACGGcUCGCg -3'
miRNA:   3'- caGAGGCu------CUUGGaCGA-CUGUC-AGCG- -5'
28933 3' -53.9 NC_006146.1 + 120845 0.66 0.967923
Target:  5'- -cUUCCugGAGGGCCUGCUGgACuG-CGCc -3'
miRNA:   3'- caGAGG--CUCUUGGACGAC-UGuCaGCG- -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.