miRNA display CGI


Results 21 - 37 of 37 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
7015 3' -56.1 NC_001875.2 + 119561 0.67 0.835085
Target:  5'- gCCGGCUGCacacgguggccuGcAAGUGCUUGUUGUCAAa -3'
miRNA:   3'- aGGUUGGCG------------C-UUCACGAGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 129929 0.66 0.851522
Target:  5'- aUUGGCgGCGGcaUGCUCGUgGCCAAa -3'
miRNA:   3'- aGGUUGgCGCUucACGAGCAgCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 654 0.66 0.857083
Target:  5'- gCCAACauaaacugcaaacaCGcCGggGUGCg-GUCGCCAGu -3'
miRNA:   3'- aGGUUG--------------GC-GCuuCACGagCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 114566 0.66 0.859435
Target:  5'- cUCCAguGCgGCGGAuuGUGCgCGUCGgCAAa -3'
miRNA:   3'- -AGGU--UGgCGCUU--CACGaGCAGCgGUU- -5'
7015 3' -56.1 NC_001875.2 + 93930 0.66 0.867135
Target:  5'- gUCCAACacgaCGCGGugccAGUGC-CG-CGCCAGc -3'
miRNA:   3'- -AGGUUG----GCGCU----UCACGaGCaGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 122251 0.68 0.732876
Target:  5'- -gCGGCCGCGAaugGGUGaUCGaCGCCGAu -3'
miRNA:   3'- agGUUGGCGCU---UCACgAGCaGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 129981 0.69 0.702565
Target:  5'- -gCGGCgGCGGcaUGCUCGUgGCCAAa -3'
miRNA:   3'- agGUUGgCGCUucACGAGCAgCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 71885 0.74 0.413462
Target:  5'- cCCAGCCGCGAAua-CUCGUCGaCCAGc -3'
miRNA:   3'- aGGUUGGCGCUUcacGAGCAGC-GGUU- -5'
7015 3' -56.1 NC_001875.2 + 11807 0.72 0.557706
Target:  5'- gCCGGCCGCGucGGUGUUUGUggucgCGCCGGu -3'
miRNA:   3'- aGGUUGGCGCu-UCACGAGCA-----GCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 94256 0.72 0.557706
Target:  5'- gCCGGCCGCGGc--GCUCG-CGCCGg -3'
miRNA:   3'- aGGUUGGCGCUucaCGAGCaGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 67366 0.7 0.615545
Target:  5'- -aCAACCGCGAcucguccaccgGCUCGUCgGCCAAu -3'
miRNA:   3'- agGUUGGCGCUuca--------CGAGCAG-CGGUU- -5'
7015 3' -56.1 NC_001875.2 + 72124 0.7 0.619707
Target:  5'- cUCCAG-CGCGAGccgcUGCUCGcUCGCCAGc -3'
miRNA:   3'- -AGGUUgGCGCUUc---ACGAGC-AGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 101330 0.69 0.682034
Target:  5'- gUCguGCaCGUGgcGUGCuUUGUCGCCAAa -3'
miRNA:   3'- -AGguUG-GCGCuuCACG-AGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 16388 0.69 0.691298
Target:  5'- gCUAGCucaaCGCGGuaggugcGGUGUUCGUCGCCGc -3'
miRNA:   3'- aGGUUG----GCGCU-------UCACGAGCAGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 67707 0.69 0.702565
Target:  5'- gCCGGCgGCcuGAGGggGUUCGUUGCCGAg -3'
miRNA:   3'- aGGUUGgCG--CUUCa-CGAGCAGCGGUU- -5'
7015 3' -56.1 NC_001875.2 + 82983 0.69 0.702565
Target:  5'- uUCC--UCGCGgcGccGCUCGUCGCCGg -3'
miRNA:   3'- -AGGuuGGCGCuuCa-CGAGCAGCGGUu -5'
7015 3' -56.1 NC_001875.2 + 17834 0.66 0.870155
Target:  5'- gCCAugCGCGAgggcgccgaaaacgaGGUGCa-GUCgGCCGAg -3'
miRNA:   3'- aGGUugGCGCU---------------UCACGagCAG-CGGUU- -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.