miRNA display CGI


Results 1 - 18 of 18 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
6740 3' -51.3 NC_001875.2 + 108852 0.66 0.993062
Target:  5'- aUGACCUCGUucaggaugcaGUCgCuGGAAAGCgCGGc -3'
miRNA:   3'- cGCUGGAGCA----------CAG-GuCUUUUUGgGCC- -5'
6740 3' -51.3 NC_001875.2 + 49527 0.66 0.993062
Target:  5'- cGCGACCagUCGcUGgugCUGGAcuuGGGGCCCGa -3'
miRNA:   3'- -CGCUGG--AGC-ACa--GGUCU---UUUUGGGCc -5'
6740 3' -51.3 NC_001875.2 + 11638 0.66 0.990864
Target:  5'- cGCGcAUCgUUGUGUUCAGcgGAAAGCCCa- -3'
miRNA:   3'- -CGC-UGG-AGCACAGGUC--UUUUUGGGcc -5'
6740 3' -51.3 NC_001875.2 + 29845 0.66 0.988153
Target:  5'- aCGGCCcCGUGcCCGGc---ACCUGGg -3'
miRNA:   3'- cGCUGGaGCACaGGUCuuuuUGGGCC- -5'
6740 3' -51.3 NC_001875.2 + 102231 0.68 0.976224
Target:  5'- cGCGACaagcuUCGUGUugUCAGAA--GCCgCGGg -3'
miRNA:   3'- -CGCUGg----AGCACA--GGUCUUuuUGG-GCC- -5'
6740 3' -51.3 NC_001875.2 + 89814 0.68 0.976224
Target:  5'- gGCGGCagaUCGUGgugCCGGuuaacGGGCCCGc -3'
miRNA:   3'- -CGCUGg--AGCACa--GGUCuu---UUUGGGCc -5'
6740 3' -51.3 NC_001875.2 + 7208 0.68 0.967708
Target:  5'- aCGACCcgcUCGUGUCCAacAcgGCCCa- -3'
miRNA:   3'- cGCUGG---AGCACAGGUcuUuuUGGGcc -5'
6740 3' -51.3 NC_001875.2 + 38399 0.69 0.958745
Target:  5'- cGCGGCCaUGUuUCCGGAAcacgcacacauauuuGAGCCCGc -3'
miRNA:   3'- -CGCUGGaGCAcAGGUCUU---------------UUUGGGCc -5'
6740 3' -51.3 NC_001875.2 + 102874 0.69 0.953272
Target:  5'- aGCGGCaCUU-UGUCCAccGGAAAGCCgCGGc -3'
miRNA:   3'- -CGCUG-GAGcACAGGU--CUUUUUGG-GCC- -5'
6740 3' -51.3 NC_001875.2 + 114029 0.69 0.939951
Target:  5'- gGCGGCCgcgCG-GUCCAGAugguAGCaCgCGGg -3'
miRNA:   3'- -CGCUGGa--GCaCAGGUCUuu--UUG-G-GCC- -5'
6740 3' -51.3 NC_001875.2 + 3343 0.7 0.935017
Target:  5'- gGCG-CCUCGUGUCCGGucacgcgcauGAGAuaacGCgCGGc -3'
miRNA:   3'- -CGCuGGAGCACAGGUC----------UUUU----UGgGCC- -5'
6740 3' -51.3 NC_001875.2 + 77631 0.7 0.924401
Target:  5'- gGCGGCaacggCUCGgGUCUGGugccGAACCCGGg -3'
miRNA:   3'- -CGCUG-----GAGCaCAGGUCuu--UUUGGGCC- -5'
6740 3' -51.3 NC_001875.2 + 57582 0.7 0.924401
Target:  5'- cGCGGCgUCGcgcUGUCCAGAA--GCgUGGu -3'
miRNA:   3'- -CGCUGgAGC---ACAGGUCUUuuUGgGCC- -5'
6740 3' -51.3 NC_001875.2 + 46580 0.7 0.918718
Target:  5'- cGgGGCgCUCGUGUCCGcgccGAGcgcgGAACCCGc -3'
miRNA:   3'- -CgCUG-GAGCACAGGU----CUU----UUUGGGCc -5'
6740 3' -51.3 NC_001875.2 + 75959 0.72 0.848616
Target:  5'- cGCGGCCaUCGgcacaGUCgAGggGcucagcaacGACCCGGa -3'
miRNA:   3'- -CGCUGG-AGCa----CAGgUCuuU---------UUGGGCC- -5'
6740 3' -51.3 NC_001875.2 + 17733 0.73 0.805518
Target:  5'- cCGGCgUCGUGUCCAGccAAACgCCGu -3'
miRNA:   3'- cGCUGgAGCACAGGUCuuUUUG-GGCc -5'
6740 3' -51.3 NC_001875.2 + 77794 0.75 0.697936
Target:  5'- cCGACCUCGUGUUCGGcAccgagaacgacGAGugCCGGu -3'
miRNA:   3'- cGCUGGAGCACAGGUC-U-----------UUUugGGCC- -5'
6740 3' -51.3 NC_001875.2 + 115325 1.13 0.004633
Target:  5'- cGCGACCUCGUGUCCAGAAAAACCCGGu -3'
miRNA:   3'- -CGCUGGAGCACAGGUCUUUUUGGGCC- -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.