miRNA display CGI


Results 1 - 20 of 22 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
18180 3' -59.7 NC_004680.1 + 20152 0.66 0.481931
Target:  5'- -cGGGUGAuuuguugucGCCggaGGAUCAGgCGGCGg -3'
miRNA:   3'- caCCCGCU---------UGGa--CCUGGUCgGCUGCa -5'
18180 3' -59.7 NC_004680.1 + 33768 0.66 0.477989
Target:  5'- aUGGGCauGCCcgcagucccggugGGACCuGCCGGCGc -3'
miRNA:   3'- cACCCGcuUGGa------------CCUGGuCGGCUGCa -5'
18180 3' -59.7 NC_004680.1 + 29062 0.67 0.462384
Target:  5'- uUGGGCGAACgUgcGGGCCGcGCguuCGGCGg -3'
miRNA:   3'- cACCCGCUUGgA--CCUGGU-CG---GCUGCa -5'
18180 3' -59.7 NC_004680.1 + 47633 0.67 0.461417
Target:  5'- cGUGGGCugagcagaucGAACUgUGGAaguucaaCCAgGCCGACGUg -3'
miRNA:   3'- -CACCCG----------CUUGG-ACCU-------GGU-CGGCUGCA- -5'
18180 3' -59.7 NC_004680.1 + 40989 0.67 0.452767
Target:  5'- -gGGGuCGAGCCUGGugaguaguCCAcGCCG-CGg -3'
miRNA:   3'- caCCC-GCUUGGACCu-------GGU-CGGCuGCa -5'
18180 3' -59.7 NC_004680.1 + 33442 0.67 0.443261
Target:  5'- -aGGGCuuucuGGACgaugacaUGGACCAGCuCGGCGg -3'
miRNA:   3'- caCCCG-----CUUGg------ACCUGGUCG-GCUGCa -5'
18180 3' -59.7 NC_004680.1 + 13409 0.67 0.443261
Target:  5'- -cGcGGCGAGuCCauuucggGGACCGGCCG-CGg -3'
miRNA:   3'- caC-CCGCUU-GGa------CCUGGUCGGCuGCa -5'
18180 3' -59.7 NC_004680.1 + 23222 0.67 0.433868
Target:  5'- -aGGGCGGcAUCUGGucgGCCAGCuCGuCGg -3'
miRNA:   3'- caCCCGCU-UGGACC---UGGUCG-GCuGCa -5'
18180 3' -59.7 NC_004680.1 + 12236 0.67 0.424592
Target:  5'- cUGGGCGGcagcGCC-GGACgGGuuGAUGUu -3'
miRNA:   3'- cACCCGCU----UGGaCCUGgUCggCUGCA- -5'
18180 3' -59.7 NC_004680.1 + 18846 0.67 0.415436
Target:  5'- cUGGGCGugguguCgUGGAUCGGCuaCGGCGUg -3'
miRNA:   3'- cACCCGCuu----GgACCUGGUCG--GCUGCA- -5'
18180 3' -59.7 NC_004680.1 + 30684 0.68 0.380052
Target:  5'- cGUGGGUGcGACUgUGaGGCCGGCCGAUc- -3'
miRNA:   3'- -CACCCGC-UUGG-AC-CUGGUCGGCUGca -5'
18180 3' -59.7 NC_004680.1 + 23729 0.68 0.371526
Target:  5'- -gGGGCGcaugagGGgCUGGACgauaaGGCCGACGUc -3'
miRNA:   3'- caCCCGC------UUgGACCUGg----UCGGCUGCA- -5'
18180 3' -59.7 NC_004680.1 + 1843 0.68 0.363132
Target:  5'- cGUGGGCGGGCCgguucccGGAUCGgGuuGugGa -3'
miRNA:   3'- -CACCCGCUUGGa------CCUGGU-CggCugCa -5'
18180 3' -59.7 NC_004680.1 + 39269 0.69 0.35487
Target:  5'- cUGGuGCGAGCCUcGGGCgAGUCGaaGCGg -3'
miRNA:   3'- cACC-CGCUUGGA-CCUGgUCGGC--UGCa -5'
18180 3' -59.7 NC_004680.1 + 12972 0.69 0.315575
Target:  5'- uUGGGCuGGACCUGG-CCuuGGgCGGCGg -3'
miRNA:   3'- cACCCG-CUUGGACCuGG--UCgGCUGCa -5'
18180 3' -59.7 NC_004680.1 + 49530 0.7 0.279654
Target:  5'- gGUGGGCGGGCCUGucauuuGGCUuGgCGACGg -3'
miRNA:   3'- -CACCCGCUUGGAC------CUGGuCgGCUGCa -5'
18180 3' -59.7 NC_004680.1 + 43127 0.7 0.279654
Target:  5'- --cGGCGAGCCUGcACCAGUgguCGGCGUu -3'
miRNA:   3'- cacCCGCUUGGACcUGGUCG---GCUGCA- -5'
18180 3' -59.7 NC_004680.1 + 47396 0.72 0.212174
Target:  5'- -cGGGUGAgcuucucaACCUGGacuGCCAGCCGAUc- -3'
miRNA:   3'- caCCCGCU--------UGGACC---UGGUCGGCUGca -5'
18180 3' -59.7 NC_004680.1 + 41422 0.72 0.212174
Target:  5'- gGUGcGGCGAgGCCgGGGCCGaugauGCCGGCGg -3'
miRNA:   3'- -CAC-CCGCU-UGGaCCUGGU-----CGGCUGCa -5'
18180 3' -59.7 NC_004680.1 + 16725 0.73 0.181608
Target:  5'- -aGGGCGAACCgGGuguuCCGGCC-ACGUu -3'
miRNA:   3'- caCCCGCUUGGaCCu---GGUCGGcUGCA- -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.