miRNA display CGI


Results 1 - 20 of 42 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
12974 5' -59.7 NC_003387.1 + 350 0.66 0.4604
Target:  5'- uGGCUCgCCGCAaacGUgacagucuGGCUCGUCGcGGCg -3'
miRNA:   3'- -UCGGG-GGCGUa--CG--------UCGAGCAGCaCUG- -5'
12974 5' -59.7 NC_003387.1 + 26568 0.66 0.457466
Target:  5'- cGCCCUUgcgggcggugccggGCAUGCuGGCUCGUgcUGACa -3'
miRNA:   3'- uCGGGGG--------------CGUACG-UCGAGCAgcACUG- -5'
12974 5' -59.7 NC_003387.1 + 6610 0.66 0.457466
Target:  5'- gAGCCaCCGCAgcagccggaacaUGUcggcggccgucuugGGCUCGUCGUcGACc -3'
miRNA:   3'- -UCGGgGGCGU------------ACG--------------UCGAGCAGCA-CUG- -5'
12974 5' -59.7 NC_003387.1 + 42690 0.66 0.450659
Target:  5'- cGCCCUCgGCGcGCuucGGCUCGUCGUc-- -3'
miRNA:   3'- uCGGGGG-CGUaCG---UCGAGCAGCAcug -5'
12974 5' -59.7 NC_003387.1 + 24270 0.66 0.450659
Target:  5'- gGGCCgCCGC---CAGCUCGUCGa--- -3'
miRNA:   3'- -UCGGgGGCGuacGUCGAGCAGCacug -5'
12974 5' -59.7 NC_003387.1 + 48195 0.66 0.450659
Target:  5'- aGGUgCCCGCAccggcgGCGGCggcCGagGUGACc -3'
miRNA:   3'- -UCGgGGGCGUa-----CGUCGa--GCagCACUG- -5'
12974 5' -59.7 NC_003387.1 + 40143 0.66 0.441032
Target:  5'- aGGCCCacggcgacaCCGUcgGCGGCccgaUCGUCGUcGAg -3'
miRNA:   3'- -UCGGG---------GGCGuaCGUCG----AGCAGCA-CUg -5'
12974 5' -59.7 NC_003387.1 + 52132 0.66 0.441032
Target:  5'- -aCCCCCGCAUgGCuaCUCGcaccccgCGUGACg -3'
miRNA:   3'- ucGGGGGCGUA-CGucGAGCa------GCACUG- -5'
12974 5' -59.7 NC_003387.1 + 48429 0.66 0.441032
Target:  5'- cAGCCaccagcaCCGCGUGCAGUUCaUCGaGGg -3'
miRNA:   3'- -UCGGg------GGCGUACGUCGAGcAGCaCUg -5'
12974 5' -59.7 NC_003387.1 + 26182 0.66 0.431523
Target:  5'- uGUCgUCGCGUGCuugccugacGGCUCGUCGUcgucGGCc -3'
miRNA:   3'- uCGGgGGCGUACG---------UCGAGCAGCA----CUG- -5'
12974 5' -59.7 NC_003387.1 + 50342 0.66 0.431523
Target:  5'- aGGCCgCCCGCG-GCAacGUgaccgCGUaCGUGGCg -3'
miRNA:   3'- -UCGG-GGGCGUaCGU--CGa----GCA-GCACUG- -5'
12974 5' -59.7 NC_003387.1 + 51228 0.66 0.431523
Target:  5'- cGGCCgCgGCcUGguGCUCGaCGUcGACg -3'
miRNA:   3'- -UCGGgGgCGuACguCGAGCaGCA-CUG- -5'
12974 5' -59.7 NC_003387.1 + 28827 0.66 0.431523
Target:  5'- cAGCCCCUcgGCGcGCAGCaCGUCGg--- -3'
miRNA:   3'- -UCGGGGG--CGUaCGUCGaGCAGCacug -5'
12974 5' -59.7 NC_003387.1 + 679 0.66 0.422134
Target:  5'- cAGCCCCgGCAggguacGCAGggccuugaucgcCUCGUCGUcGAg -3'
miRNA:   3'- -UCGGGGgCGUa-----CGUC------------GAGCAGCA-CUg -5'
12974 5' -59.7 NC_003387.1 + 22988 0.66 0.422134
Target:  5'- cAGCUcgCCCGCGUaGCuGC-CGUCGUcGGCc -3'
miRNA:   3'- -UCGG--GGGCGUA-CGuCGaGCAGCA-CUG- -5'
12974 5' -59.7 NC_003387.1 + 25458 0.66 0.419342
Target:  5'- cGCUgCCCGCGUcGCGGCUCaugcggcgcauccuGUCG-GGCg -3'
miRNA:   3'- uCGG-GGGCGUA-CGUCGAG--------------CAGCaCUG- -5'
12974 5' -59.7 NC_003387.1 + 41229 0.67 0.41287
Target:  5'- cGGCaaCUCCGCGgugcaugGCGGCgacaagGUCGUGACg -3'
miRNA:   3'- -UCG--GGGGCGUa------CGUCGag----CAGCACUG- -5'
12974 5' -59.7 NC_003387.1 + 28266 0.67 0.41287
Target:  5'- cAGCaCCUCGC--GCuGCUCGUCGgcUGAUa -3'
miRNA:   3'- -UCG-GGGGCGuaCGuCGAGCAGC--ACUG- -5'
12974 5' -59.7 NC_003387.1 + 20536 0.67 0.403732
Target:  5'- uGCCCCUGC--GguGUUCGUCGgcuGCg -3'
miRNA:   3'- uCGGGGGCGuaCguCGAGCAGCac-UG- -5'
12974 5' -59.7 NC_003387.1 + 12313 0.67 0.402825
Target:  5'- cGCCgUCGCcgacguaggucacGUGCAGCUCGcCGccGACg -3'
miRNA:   3'- uCGGgGGCG-------------UACGUCGAGCaGCa-CUG- -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.