miRNA display CGI


Results 1 - 11 of 11 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
9723 5' -61.8 NC_002577.1 + 28292 0.67 0.622711
Target:  5'- -cCCCcGGCGugcuGGCCUCGUGuagagGGCGCUa -3'
miRNA:   3'- gcGGGaCCGC----CCGGAGCAC-----UUGCGAc -5'
9723 5' -61.8 NC_002577.1 + 136729 0.67 0.593372
Target:  5'- aCGCUUcagggggggUGGgGGGCCUUGUGca-GCUGg -3'
miRNA:   3'- -GCGGG---------ACCgCCCGGAGCACuugCGAC- -5'
9723 5' -61.8 NC_002577.1 + 160608 0.67 0.593372
Target:  5'- aCGCUUcagggggggUGGgGGGCCUUGUGca-GCUGg -3'
miRNA:   3'- -GCGGG---------ACCgCCCGGAGCACuugCGAC- -5'
9723 5' -61.8 NC_002577.1 + 133438 0.68 0.558485
Target:  5'- gGCCC-GGCGaGGCCUaacagucaccccgacCGUGAuacaugacaccaACGCUGc -3'
miRNA:   3'- gCGGGaCCGC-CCGGA---------------GCACU------------UGCGAC- -5'
9723 5' -61.8 NC_002577.1 + 175 0.68 0.558485
Target:  5'- gGCCC-GGCGaGGCCUaacagucaccccgacCGUGAuacaugacaccaACGCUGc -3'
miRNA:   3'- gCGGGaCCGC-CCGGA---------------GCACU------------UGCGAC- -5'
9723 5' -61.8 NC_002577.1 + 136311 0.69 0.507359
Target:  5'- cCGCCUgGGCGGGCCg-GUGGAgaGCg- -3'
miRNA:   3'- -GCGGGaCCGCCCGGagCACUUg-CGac -5'
9723 5' -61.8 NC_002577.1 + 161027 0.69 0.507359
Target:  5'- cCGCCUgGGCGGGCCg-GUGGAgaGCg- -3'
miRNA:   3'- -GCGGGaCCGCCCGGagCACUUg-CGac -5'
9723 5' -61.8 NC_002577.1 + 42116 0.71 0.40203
Target:  5'- aCGCCCUGGUGGGUCUCca-GACGg-- -3'
miRNA:   3'- -GCGGGACCGCCCGGAGcacUUGCgac -5'
9723 5' -61.8 NC_002577.1 + 82872 0.73 0.291629
Target:  5'- gCGCUaaagugGGCGGGCCUCGUaAAUGCUu -3'
miRNA:   3'- -GCGGga----CCGCCCGGAGCAcUUGCGAc -5'
9723 5' -61.8 NC_002577.1 + 57994 0.78 0.133335
Target:  5'- gGCCCgccagGGCGGGCCUCGUuuGAGuCGCg- -3'
miRNA:   3'- gCGGGa----CCGCCCGGAGCA--CUU-GCGac -5'
9723 5' -61.8 NC_002577.1 + 57817 1.07 0.001246
Target:  5'- cCGCCCUGGCGGGCCUCGUGAACGCUGu -3'
miRNA:   3'- -GCGGGACCGCCCGGAGCACUUGCGAC- -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.