miRNA display CGI


Results 1 - 16 of 16 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
11320 3' -53.7 NC_003084.1 + 127 0.66 0.926144
Target:  5'- uGUUGUUCaGCGUGCACuCGUUCAGCGu -3'
miRNA:   3'- -UAGUAAGgUGUGCGUGuGCAGGUCGC- -5'
11320 3' -53.7 NC_003084.1 + 59860 0.66 0.926144
Target:  5'- ----gUCCGCGCGCuGCAC-UCUAGCu -3'
miRNA:   3'- uaguaAGGUGUGCG-UGUGcAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 15094 0.66 0.926144
Target:  5'- -gCGUggcgCCGCAU-CACAuCGUCCAGCu -3'
miRNA:   3'- uaGUAa---GGUGUGcGUGU-GCAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 25862 0.66 0.916848
Target:  5'- -cCGggCCGCugGUgcugcauacaucgagGCugGUCCAGCu -3'
miRNA:   3'- uaGUaaGGUGugCG---------------UGugCAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 59409 0.66 0.901657
Target:  5'- cUCAcuUUCCuugGCAuugcgagacuuuCGCGCACGUUUAGCGg -3'
miRNA:   3'- uAGU--AAGG---UGU------------GCGUGUGCAGGUCGC- -5'
11320 3' -53.7 NC_003084.1 + 95092 0.67 0.857395
Target:  5'- ----aUCCACGCuCAU-CGUCCAGCGc -3'
miRNA:   3'- uaguaAGGUGUGcGUGuGCAGGUCGC- -5'
11320 3' -53.7 NC_003084.1 + 93274 0.68 0.832174
Target:  5'- uAUCGUUCaGCACGauauCGUCCAGCu -3'
miRNA:   3'- -UAGUAAGgUGUGCguguGCAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 97629 0.68 0.814352
Target:  5'- uUCAUcUCCAaaaACGUGCGCGgucUCCAGCu -3'
miRNA:   3'- uAGUA-AGGUg--UGCGUGUGC---AGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 977 0.69 0.805164
Target:  5'- -cCGUUUCACAuCGCGCACGUCgAaCGa -3'
miRNA:   3'- uaGUAAGGUGU-GCGUGUGCAGgUcGC- -5'
11320 3' -53.7 NC_003084.1 + 34878 0.69 0.765809
Target:  5'- uGUCGUguggCCAgGCgucuucaGCACGCGaCCAGCGg -3'
miRNA:   3'- -UAGUAa---GGUgUG-------CGUGUGCaGGUCGC- -5'
11320 3' -53.7 NC_003084.1 + 26015 0.7 0.756853
Target:  5'- cUCGggagCCcaaACGCGCACAaaaGUCCAGCc -3'
miRNA:   3'- uAGUaa--GG---UGUGCGUGUg--CAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 80476 0.74 0.484954
Target:  5'- uGUCAacCCGCuucgugAUGCACAUGUCCAGCGc -3'
miRNA:   3'- -UAGUaaGGUG------UGCGUGUGCAGGUCGC- -5'
11320 3' -53.7 NC_003084.1 + 51807 0.75 0.474073
Target:  5'- -cCGUUCCACGCGCGCACGUaauauuuuacuccCCuGUGc -3'
miRNA:   3'- uaGUAAGGUGUGCGUGUGCA-------------GGuCGC- -5'
11320 3' -53.7 NC_003084.1 + 15789 0.75 0.465263
Target:  5'- -----cUCACGCGCAgCACGUCCGGCa -3'
miRNA:   3'- uaguaaGGUGUGCGU-GUGCAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 12617 0.75 0.465263
Target:  5'- gGUCAggaCCGCcagaugGCGUACAUGUCCAGCa -3'
miRNA:   3'- -UAGUaa-GGUG------UGCGUGUGCAGGUCGc -5'
11320 3' -53.7 NC_003084.1 + 25894 1.07 0.004184
Target:  5'- gAUCAUUCCACACGCACACGUCCAGCGu -3'
miRNA:   3'- -UAGUAAGGUGUGCGUGUGCAGGUCGC- -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.