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
25881 3' -54.5 NC_005337.1 + 29978 0.66 0.946199
Target:  5'- cGUCGGGcguGaUCCCGUCcUCGUCGu- -3'
miRNA:   3'- -CGGUCCuu-CaAGGGCAGcAGCAGCuu -5'
25881 3' -54.5 NC_005337.1 + 40208 0.66 0.941176
Target:  5'- gGCCgcAGGGAccagcccGUUCCCGgaaccUCGUCGuUCGAc -3'
miRNA:   3'- -CGG--UCCUU-------CAAGGGC-----AGCAGC-AGCUu -5'
25881 3' -54.5 NC_005337.1 + 9995 0.66 0.931808
Target:  5'- gGCCAcGGcaGGGUUCUCGUCGUcCGggaCGAu -3'
miRNA:   3'- -CGGU-CC--UUCAAGGGCAGCA-GCa--GCUu -5'
25881 3' -54.5 NC_005337.1 + 43461 0.66 0.92099
Target:  5'- cCCcGGGAGUUCCCG-CGgCGcUCGAc -3'
miRNA:   3'- cGGuCCUUCAAGGGCaGCaGC-AGCUu -5'
25881 3' -54.5 NC_005337.1 + 67933 0.66 0.92099
Target:  5'- uCCAGGAAGguggcCCCGUCGcCGaaGAc -3'
miRNA:   3'- cGGUCCUUCaa---GGGCAGCaGCagCUu -5'
25881 3' -54.5 NC_005337.1 + 64254 0.66 0.92099
Target:  5'- -aCAGGuAG-UCCUugauGUCGUCGUCGGg -3'
miRNA:   3'- cgGUCCuUCaAGGG----CAGCAGCAGCUu -5'
25881 3' -54.5 NC_005337.1 + 7185 0.67 0.912834
Target:  5'- gGCCAGGAAGgaggagagcaCGUUGUCGUaGAAg -3'
miRNA:   3'- -CGGUCCUUCaagg------GCAGCAGCAgCUU- -5'
25881 3' -54.5 NC_005337.1 + 103934 0.67 0.90293
Target:  5'- cGCgGGGcuGGUguacgagCCCGagGUCGUCGAu -3'
miRNA:   3'- -CGgUCCu-UCAa------GGGCagCAGCAGCUu -5'
25881 3' -54.5 NC_005337.1 + 105345 0.68 0.882715
Target:  5'- cGgCGGGAGGcUCCCGUCGaUCG-CGu- -3'
miRNA:   3'- -CgGUCCUUCaAGGGCAGC-AGCaGCuu -5'
25881 3' -54.5 NC_005337.1 + 19638 0.68 0.844537
Target:  5'- aCCGGGggGaUCCCGUgGUCG-Ca-- -3'
miRNA:   3'- cGGUCCuuCaAGGGCAgCAGCaGcuu -5'
25881 3' -54.5 NC_005337.1 + 105616 0.69 0.827833
Target:  5'- -aCGGGAAuGUUCCCGUCGUaccUGUCc-- -3'
miRNA:   3'- cgGUCCUU-CAAGGGCAGCA---GCAGcuu -5'
25881 3' -54.5 NC_005337.1 + 41187 0.69 0.819203
Target:  5'- uGCCGcGGAGGagCCCGUCGUagucCGUCu-- -3'
miRNA:   3'- -CGGU-CCUUCaaGGGCAGCA----GCAGcuu -5'
25881 3' -54.5 NC_005337.1 + 125129 0.71 0.704597
Target:  5'- uCCAGGAGGUccUCCCGgcCGUCGcgCGGu -3'
miRNA:   3'- cGGUCCUUCA--AGGGCa-GCAGCa-GCUu -5'
25881 3' -54.5 NC_005337.1 + 23828 0.73 0.605545
Target:  5'- cGCCucGGAGGUccugCCCGcguucgucgacugccUCGUCGUCGAGg -3'
miRNA:   3'- -CGGu-CCUUCAa---GGGC---------------AGCAGCAGCUU- -5'
25881 3' -54.5 NC_005337.1 + 4713 0.74 0.530021
Target:  5'- gGCCAGGggGgacaUCUCGUaCG-CGUCGAGa -3'
miRNA:   3'- -CGGUCCuuCa---AGGGCA-GCaGCAGCUU- -5'
25881 3' -54.5 NC_005337.1 + 75053 1.08 0.004207
Target:  5'- cGCCAGGAAGUUCCCGUCGUCGUCGAAc -3'
miRNA:   3'- -CGGUCCUUCAAGGGCAGCAGCAGCUU- -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.