miRNA display CGI


Results 1 - 20 of 40 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
3607 3' -45.9 NC_001650.1 + 53407 0.66 0.999994
Target:  5'- ---gGAGAGGUcggGGUCAaccggcggucagAGGGgGGCg -3'
miRNA:   3'- gaaaUUCUCCAa--UCAGU------------UCCUgUCGa -5'
3607 3' -45.9 NC_001650.1 + 40593 0.66 0.999992
Target:  5'- --aUGGGGGGcuagggcUAGagAGGGGCGGCUa -3'
miRNA:   3'- gaaAUUCUCCa------AUCagUUCCUGUCGA- -5'
3607 3' -45.9 NC_001650.1 + 127554 0.66 0.999984
Target:  5'- ---cGAGGGGgaAGgggCGAGGGgGGCg -3'
miRNA:   3'- gaaaUUCUCCaaUCa--GUUCCUgUCGa -5'
3607 3' -45.9 NC_001650.1 + 57476 0.66 0.999984
Target:  5'- ---aGGGAGGggAGgcaugCGGGGcGCAGCa -3'
miRNA:   3'- gaaaUUCUCCaaUCa----GUUCC-UGUCGa -5'
3607 3' -45.9 NC_001650.1 + 122958 0.66 0.999982
Target:  5'- ---gAAGAGGgccccgaagugccUGGUCAGGGagaaGCAGCa -3'
miRNA:   3'- gaaaUUCUCCa------------AUCAGUUCC----UGUCGa -5'
3607 3' -45.9 NC_001650.1 + 21365 0.66 0.999978
Target:  5'- uUUUAAGAGGgccAGagGGGGGCGcGCg -3'
miRNA:   3'- gAAAUUCUCCaa-UCagUUCCUGU-CGa -5'
3607 3' -45.9 NC_001650.1 + 60181 0.67 0.99997
Target:  5'- ---gAGGAGGccggGGUCugcGGGCGGCg -3'
miRNA:   3'- gaaaUUCUCCaa--UCAGuu-CCUGUCGa -5'
3607 3' -45.9 NC_001650.1 + 11649 0.67 0.99996
Target:  5'- ---gGGGAGGUugUAGUU-GGGugGGCUg -3'
miRNA:   3'- gaaaUUCUCCA--AUCAGuUCCugUCGA- -5'
3607 3' -45.9 NC_001650.1 + 75231 0.67 0.99996
Target:  5'- ---cAGGAGG-UGGUCcacAGGGACGGgCUg -3'
miRNA:   3'- gaaaUUCUCCaAUCAG---UUCCUGUC-GA- -5'
3607 3' -45.9 NC_001650.1 + 178356 0.67 0.99996
Target:  5'- ---gGGGAGGUugUAGUU-GGGugGGCUg -3'
miRNA:   3'- gaaaUUCUCCA--AUCAGuUCCugUCGA- -5'
3607 3' -45.9 NC_001650.1 + 50041 0.67 0.999959
Target:  5'- --cUGAGGGGgcuuugGGUCAacagcaaAGGAgAGCUa -3'
miRNA:   3'- gaaAUUCUCCaa----UCAGU-------UCCUgUCGA- -5'
3607 3' -45.9 NC_001650.1 + 14608 0.67 0.999955
Target:  5'- gUUUAGGuGGgcaaggguccaugUGGUCAAGGGgGGCc -3'
miRNA:   3'- gAAAUUCuCCa------------AUCAGUUCCUgUCGa -5'
3607 3' -45.9 NC_001650.1 + 181315 0.67 0.999955
Target:  5'- gUUUAGGuGGgcaaggguccaugUGGUCAAGGGgGGCc -3'
miRNA:   3'- gAAAUUCuCCa------------AUCAGUUCCUgUCGa -5'
3607 3' -45.9 NC_001650.1 + 165535 0.67 0.999946
Target:  5'- ---cAAGAGGgcuGUUGAgcGGGCAGCUg -3'
miRNA:   3'- gaaaUUCUCCaauCAGUU--CCUGUCGA- -5'
3607 3' -45.9 NC_001650.1 + 128291 0.67 0.999928
Target:  5'- ---gGAGAGccagccGggGGUCAAGGACAGg- -3'
miRNA:   3'- gaaaUUCUC------CaaUCAGUUCCUGUCga -5'
3607 3' -45.9 NC_001650.1 + 56266 0.67 0.999928
Target:  5'- ---gAGGGGGUUGGgcgAAGGACGGg- -3'
miRNA:   3'- gaaaUUCUCCAAUCag-UUCCUGUCga -5'
3607 3' -45.9 NC_001650.1 + 82012 0.67 0.999904
Target:  5'- ---cAGGAGGgacaAGUCAgacAGGAUGGCg -3'
miRNA:   3'- gaaaUUCUCCaa--UCAGU---UCCUGUCGa -5'
3607 3' -45.9 NC_001650.1 + 15531 0.67 0.999904
Target:  5'- ---gGAGAGGggAG--GAGGugGGCUg -3'
miRNA:   3'- gaaaUUCUCCaaUCagUUCCugUCGA- -5'
3607 3' -45.9 NC_001650.1 + 129880 0.67 0.999904
Target:  5'- ---cGGGAGG---GUCGAGGACAGg- -3'
miRNA:   3'- gaaaUUCUCCaauCAGUUCCUGUCga -5'
3607 3' -45.9 NC_001650.1 + 182238 0.67 0.999904
Target:  5'- ---gGAGAGGggAG--GAGGugGGCUg -3'
miRNA:   3'- gaaaUUCUCCaaUCagUUCCugUCGA- -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.