miRNA display CGI


Results 1 - 20 of 21 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
12156 3' -51.8 NC_003309.1 + 43166 0.66 0.903138
Target:  5'- -cGCGUC-AGcGAGcCCGAGGugAUGCg -3'
miRNA:   3'- gcUGCGGcUCuUUC-GGCUUCugUACG- -5'
12156 3' -51.8 NC_003309.1 + 29357 0.66 0.873336
Target:  5'- aGAUGgCGAGcgGGCUGGAuauGACGUGa -3'
miRNA:   3'- gCUGCgGCUCuuUCGGCUU---CUGUACg -5'
12156 3' -51.8 NC_003309.1 + 15443 0.66 0.865221
Target:  5'- aCGGCGUCGAGguAGCgCGcGAGuguCcgGCg -3'
miRNA:   3'- -GCUGCGGCUCuuUCG-GC-UUCu--GuaCG- -5'
12156 3' -51.8 NC_003309.1 + 37280 0.67 0.856853
Target:  5'- cCGGCGCguCGAuGgcGGUCGAGGACGUcuacgGCa -3'
miRNA:   3'- -GCUGCG--GCU-CuuUCGGCUUCUGUA-----CG- -5'
12156 3' -51.8 NC_003309.1 + 44448 0.67 0.856853
Target:  5'- aCGACGUCGccc-GGCCGAcuGCcgGCg -3'
miRNA:   3'- -GCUGCGGCucuuUCGGCUucUGuaCG- -5'
12156 3' -51.8 NC_003309.1 + 32493 0.67 0.856003
Target:  5'- -cACGCUG-GAAuuccacgGGCUGAAGACGgagGCa -3'
miRNA:   3'- gcUGCGGCuCUU-------UCGGCUUCUGUa--CG- -5'
12156 3' -51.8 NC_003309.1 + 45949 0.67 0.848241
Target:  5'- uGACGCgcuuCGGGAucGCCGGAaucguGAUcgGCu -3'
miRNA:   3'- gCUGCG----GCUCUuuCGGCUU-----CUGuaCG- -5'
12156 3' -51.8 NC_003309.1 + 19627 0.67 0.847367
Target:  5'- --uCGCCGGGAAccacGGcCCGAcguugccGGACGUGUc -3'
miRNA:   3'- gcuGCGGCUCUU----UC-GGCU-------UCUGUACG- -5'
12156 3' -51.8 NC_003309.1 + 1194 0.67 0.839393
Target:  5'- cCGuCGCCuGGGuuGCCGAuGAUcgGCu -3'
miRNA:   3'- -GCuGCGGcUCUuuCGGCUuCUGuaCG- -5'
12156 3' -51.8 NC_003309.1 + 22424 0.67 0.839393
Target:  5'- gCGGCGCgCGAGAucuuGCCcaacgcuucGGCAUGCc -3'
miRNA:   3'- -GCUGCG-GCUCUuu--CGGcuu------CUGUACG- -5'
12156 3' -51.8 NC_003309.1 + 17473 0.67 0.833975
Target:  5'- uCGACgGCCG-GAAAGCCcGGGauguagucugauccuGCGUGCc -3'
miRNA:   3'- -GCUG-CGGCuCUUUCGGcUUC---------------UGUACG- -5'
12156 3' -51.8 NC_003309.1 + 10232 0.68 0.791957
Target:  5'- -cACGCCGAGcuucacgauGCCGucGAgGUGCu -3'
miRNA:   3'- gcUGCGGCUCuuu------CGGCuuCUgUACG- -5'
12156 3' -51.8 NC_003309.1 + 25562 0.68 0.781905
Target:  5'- uCGACcggGUCGGGuguagcGGGCCGAAGACGcacggGCg -3'
miRNA:   3'- -GCUG---CGGCUCu-----UUCGGCUUCUGUa----CG- -5'
12156 3' -51.8 NC_003309.1 + 21891 0.7 0.707687
Target:  5'- aCGAUGCCGAuugGAucuGGCCGcgcGACAaGCa -3'
miRNA:   3'- -GCUGCGGCU---CUu--UCGGCuu-CUGUaCG- -5'
12156 3' -51.8 NC_003309.1 + 16178 0.7 0.707687
Target:  5'- uCGACGCCGAucGAuCCGucGGCcUGCa -3'
miRNA:   3'- -GCUGCGGCUcuUUcGGCuuCUGuACG- -5'
12156 3' -51.8 NC_003309.1 + 40484 0.7 0.685607
Target:  5'- -cGCGgCGAGGGAGCCaGAGGACGc-- -3'
miRNA:   3'- gcUGCgGCUCUUUCGG-CUUCUGUacg -5'
12156 3' -51.8 NC_003309.1 + 13048 0.72 0.584896
Target:  5'- -uGCGCCGGGAuacuGUCGcucguGGACGUGCc -3'
miRNA:   3'- gcUGCGGCUCUuu--CGGCu----UCUGUACG- -5'
12156 3' -51.8 NC_003309.1 + 16902 0.74 0.436473
Target:  5'- gCGGCGCCGAGAAucguGuuGAAGAgCccGCc -3'
miRNA:   3'- -GCUGCGGCUCUUu---CggCUUCU-GuaCG- -5'
12156 3' -51.8 NC_003309.1 + 4237 0.75 0.426675
Target:  5'- aGcCGcCCGAGAAAGCCGAGaaguuGACGauUGCg -3'
miRNA:   3'- gCuGC-GGCUCUUUCGGCUU-----CUGU--ACG- -5'
12156 3' -51.8 NC_003309.1 + 24109 0.76 0.379718
Target:  5'- aCGACGCCGGGAuacacGCCGAuaucGGCAccGCg -3'
miRNA:   3'- -GCUGCGGCUCUuu---CGGCUu---CUGUa-CG- -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.