miRNA display CGI


Results 1 - 20 of 34 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
5393 3' -60.8 NC_001798.1 + 86919 0.66 0.674142
Target:  5'- -cGgGCCUCccgcaagagccuGCCGUcgcacgcgcgcagGCUGGAGCUCu- -3'
miRNA:   3'- caCgCGGAG------------UGGCG-------------CGACCUCGAGua -5'
5393 3' -60.8 NC_001798.1 + 78398 0.66 0.665097
Target:  5'- cGUGCGCg--GCgGCGUUGGAGCgCGUg -3'
miRNA:   3'- -CACGCGgagUGgCGCGACCUCGaGUA- -5'
5393 3' -60.8 NC_001798.1 + 107663 0.66 0.655024
Target:  5'- uUGCGCCUCACCGC-CgGGAugaucccaacccGCgUCAc -3'
miRNA:   3'- cACGCGGAGUGGCGcGaCCU------------CG-AGUa -5'
5393 3' -60.8 NC_001798.1 + 54359 0.66 0.653007
Target:  5'- cUGCGCCUCGCgGCGUccggcccaccggGGGGCcgCGg -3'
miRNA:   3'- cACGCGGAGUGgCGCGa-----------CCUCGa-GUa -5'
5393 3' -60.8 NC_001798.1 + 85503 0.66 0.644933
Target:  5'- -cGCGCCcCACUGCGCcGcGAGCaucuUCGUg -3'
miRNA:   3'- caCGCGGaGUGGCGCGaC-CUCG----AGUA- -5'
5393 3' -60.8 NC_001798.1 + 103013 0.66 0.644933
Target:  5'- gGUGCGCCcgGCCaGCGC--GAGCUCGg -3'
miRNA:   3'- -CACGCGGagUGG-CGCGacCUCGAGUa -5'
5393 3' -60.8 NC_001798.1 + 154046 0.66 0.644933
Target:  5'- -cGCGCCggggCGCgGCacgGCUGGAGCg--- -3'
miRNA:   3'- caCGCGGa---GUGgCG---CGACCUCGagua -5'
5393 3' -60.8 NC_001798.1 + 24767 0.66 0.624729
Target:  5'- -cGCGCCUgGCUGCGCgagcUGcGGUUCGUg -3'
miRNA:   3'- caCGCGGAgUGGCGCG----ACcUCGAGUA- -5'
5393 3' -60.8 NC_001798.1 + 24461 0.66 0.624729
Target:  5'- -gGCGCCgcgggggugcUCGCCGCcCUGGGGCg--- -3'
miRNA:   3'- caCGCGG----------AGUGGCGcGACCUCGagua -5'
5393 3' -60.8 NC_001798.1 + 41538 0.66 0.624729
Target:  5'- uGUGCGCCccggcggggcgCACCGCGUaaauacaucggUGGAGCg--- -3'
miRNA:   3'- -CACGCGGa----------GUGGCGCG-----------ACCUCGagua -5'
5393 3' -60.8 NC_001798.1 + 26082 0.67 0.614631
Target:  5'- cUGCGCCUCugC-CGC-GGGGC-CAa -3'
miRNA:   3'- cACGCGGAGugGcGCGaCCUCGaGUa -5'
5393 3' -60.8 NC_001798.1 + 37160 0.67 0.614631
Target:  5'- -cGCGCCgCGCCGC-CUGGcgggccGCUCGg -3'
miRNA:   3'- caCGCGGaGUGGCGcGACCu-----CGAGUa -5'
5393 3' -60.8 NC_001798.1 + 37201 0.67 0.614631
Target:  5'- -cGCGCCgaacgacgggCGCgGCGCcGGAGCUUu- -3'
miRNA:   3'- caCGCGGa---------GUGgCGCGaCCUCGAGua -5'
5393 3' -60.8 NC_001798.1 + 110520 0.67 0.604547
Target:  5'- cUG-GCCgCGuCCGCGCUGGGGgUCGUu -3'
miRNA:   3'- cACgCGGaGU-GGCGCGACCUCgAGUA- -5'
5393 3' -60.8 NC_001798.1 + 117991 0.67 0.594482
Target:  5'- -aGCGCC-CGCCGgGgUGccgcGAGCUCGUg -3'
miRNA:   3'- caCGCGGaGUGGCgCgAC----CUCGAGUA- -5'
5393 3' -60.8 NC_001798.1 + 99178 0.67 0.588456
Target:  5'- -cGCGUUUCACCGggacgaccacgagacCGacaUGGAGCUCAa -3'
miRNA:   3'- caCGCGGAGUGGC---------------GCg--ACCUCGAGUa -5'
5393 3' -60.8 NC_001798.1 + 115300 0.67 0.57444
Target:  5'- -aGCGCUUCGCCGCGCacgccggGGAcCUgGUg -3'
miRNA:   3'- caCGCGGAGUGGCGCGa------CCUcGAgUA- -5'
5393 3' -60.8 NC_001798.1 + 51840 0.68 0.554557
Target:  5'- -cGCGCCUgCACacggagggGCGCggcucGGAGCUCGa -3'
miRNA:   3'- caCGCGGA-GUGg-------CGCGa----CCUCGAGUa -5'
5393 3' -60.8 NC_001798.1 + 135308 0.68 0.544691
Target:  5'- cUGgGCCcggGCCGUGCUGGAGCg--- -3'
miRNA:   3'- cACgCGGag-UGGCGCGACCUCGagua -5'
5393 3' -60.8 NC_001798.1 + 97721 0.68 0.544691
Target:  5'- cGUGCGCgagCAgCGCGg-GGAGCUCGa -3'
miRNA:   3'- -CACGCGga-GUgGCGCgaCCUCGAGUa -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.