miRNA display CGI


Results 1 - 18 of 18 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
11495 3' -54.2 NC_003085.1 + 20957 0.66 0.723079
Target:  5'- cUGCaCgagGUGCGGuGGCUGgccuucCGCaACCu -3'
miRNA:   3'- aACG-Ga--UACGCCuCCGACaa----GUG-UGG- -5'
11495 3' -54.2 NC_003085.1 + 965 0.66 0.700927
Target:  5'- -gGCCgcUGCcGGGGCaGgaCACGCCg -3'
miRNA:   3'- aaCGGauACGcCUCCGaCaaGUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 17824 0.66 0.700927
Target:  5'- -cGCCUGUGCGGcAGGCcccugGggCAgUGCUg -3'
miRNA:   3'- aaCGGAUACGCC-UCCGa----CaaGU-GUGG- -5'
11495 3' -54.2 NC_003085.1 + 3254 0.66 0.699812
Target:  5'- -cGCCUAUGCccacaacacgaccGGAGGCcGUUgGgCGCUc -3'
miRNA:   3'- aaCGGAUACG-------------CCUCCGaCAAgU-GUGG- -5'
11495 3' -54.2 NC_003085.1 + 10049 0.66 0.699812
Target:  5'- -cGCCUGcagGCuggauacgagccuGGAGGCgaagagGUUgGCGCCg -3'
miRNA:   3'- aaCGGAUa--CG-------------CCUCCGa-----CAAgUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 38765 0.66 0.689738
Target:  5'- gUGCCUc-GCGGgccgcgcgcaGGGCUGguguguccagCACGCCg -3'
miRNA:   3'- aACGGAuaCGCC----------UCCGACaa--------GUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 25533 0.66 0.667195
Target:  5'- aUGCagaugGCGGAGGCUGccCAUAgCg -3'
miRNA:   3'- aACGgaua-CGCCUCCGACaaGUGUgG- -5'
11495 3' -54.2 NC_003085.1 + 36015 0.67 0.62178
Target:  5'- -aGCUUG-GCGGAuGGCggccaUGggCACGCCg -3'
miRNA:   3'- aaCGGAUaCGCCU-CCG-----ACaaGUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 1037 0.67 0.610423
Target:  5'- -cGCCguccAUGCGGAGGaaGccaGCGCCg -3'
miRNA:   3'- aaCGGa---UACGCCUCCgaCaagUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 34956 0.68 0.565294
Target:  5'- -gGCCg--GCGGAGGCgccUCACaggaaGCCg -3'
miRNA:   3'- aaCGGauaCGCCUCCGacaAGUG-----UGG- -5'
11495 3' -54.2 NC_003085.1 + 29419 0.68 0.554134
Target:  5'- -aGCCcaugGCGGAGGCUcaggCGCugCa -3'
miRNA:   3'- aaCGGaua-CGCCUCCGAcaa-GUGugG- -5'
11495 3' -54.2 NC_003085.1 + 45263 0.69 0.532019
Target:  5'- -cGCUUcgGUGGugAGGUUGgacccgUCACACCc -3'
miRNA:   3'- aaCGGAuaCGCC--UCCGACa-----AGUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 25175 0.69 0.52108
Target:  5'- -gGCCUGgugGCGGuGGCgaugaGCGCCa -3'
miRNA:   3'- aaCGGAUa--CGCCuCCGacaagUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 47372 0.7 0.478279
Target:  5'- -cGCCgagGUGCGGcGGCUGcgcucgUCGCgucACCg -3'
miRNA:   3'- aaCGGa--UACGCCuCCGACa-----AGUG---UGG- -5'
11495 3' -54.2 NC_003085.1 + 12229 0.7 0.447343
Target:  5'- cUGCCUugagcGCGGcGGCUGggC-CGCCa -3'
miRNA:   3'- aACGGAua---CGCCuCCGACaaGuGUGG- -5'
11495 3' -54.2 NC_003085.1 + 42312 0.71 0.389001
Target:  5'- aUGCCgcgAUGCGGAuucgucGGCUGcggugUCACcaGCCg -3'
miRNA:   3'- aACGGa--UACGCCU------CCGACa----AGUG--UGG- -5'
11495 3' -54.2 NC_003085.1 + 19204 0.79 0.122309
Target:  5'- -cGCCUGgggcgGCGGGGGCUGg--GCGCCg -3'
miRNA:   3'- aaCGGAUa----CGCCUCCGACaagUGUGG- -5'
11495 3' -54.2 NC_003085.1 + 10383 1.1 0.000704
Target:  5'- gUUGCCUAUGCGGAGGCUGUUCACACCg -3'
miRNA:   3'- -AACGGAUACGCCUCCGACAAGUGUGG- -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.