miRNA display CGI


Results 1 - 20 of 43 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
11602 3' -60.3 NC_003085.1 + 771 0.67 0.354643
Target:  5'- -cGCAGuUGCU-UGCG-GCCUGCUGCUg -3'
miRNA:   3'- ccCGUC-GCGAcGCGCaUGGACGACGA- -5'
11602 3' -60.3 NC_003085.1 + 2734 0.67 0.32236
Target:  5'- uGGCAGCGC-GCGCGaagGC--GCUGCc -3'
miRNA:   3'- cCCGUCGCGaCGCGCa--UGgaCGACGa -5'
11602 3' -60.3 NC_003085.1 + 3902 0.66 0.414562
Target:  5'- aGGCcGCGCUGCGCGaggaguugacacGCCagGCUcGCg -3'
miRNA:   3'- cCCGuCGCGACGCGCa-----------UGGa-CGA-CGa -5'
11602 3' -60.3 NC_003085.1 + 7652 0.79 0.046645
Target:  5'- uGGGCGGCGCcgacaUGCGCGaGCCUG-UGCUg -3'
miRNA:   3'- -CCCGUCGCG-----ACGCGCaUGGACgACGA- -5'
11602 3' -60.3 NC_003085.1 + 10177 0.66 0.363063
Target:  5'- cGGGCGGacccgGCUGCaauGCGcgACCUGCUcacccGCg -3'
miRNA:   3'- -CCCGUCg----CGACG---CGCa-UGGACGA-----CGa -5'
11602 3' -60.3 NC_003085.1 + 10459 0.7 0.227469
Target:  5'- -cGCGGCGCUuugGCGCcccucggcuggccgACCUGCUGCg -3'
miRNA:   3'- ccCGUCGCGA---CGCGca------------UGGACGACGa -5'
11602 3' -60.3 NC_003085.1 + 11106 0.67 0.341461
Target:  5'- cGGCGGCauucgugcccaggaaGUUGCGCGUGCCagGCccgaGCUu -3'
miRNA:   3'- cCCGUCG---------------CGACGCGCAUGGa-CGa---CGA- -5'
11602 3' -60.3 NC_003085.1 + 11606 0.75 0.092504
Target:  5'- aGGGCGGCGCgaagGgGCuGUGCagggGCUGCUa -3'
miRNA:   3'- -CCCGUCGCGa---CgCG-CAUGga--CGACGA- -5'
11602 3' -60.3 NC_003085.1 + 11779 0.66 0.370758
Target:  5'- cGGCGGCGCcGCGCuccgggcGUGUCgGCUGCc -3'
miRNA:   3'- cCCGUCGCGaCGCG-------CAUGGaCGACGa -5'
11602 3' -60.3 NC_003085.1 + 11969 0.68 0.28801
Target:  5'- gGGGCGGCGUga-GCGgauugguccucuugGCCUGCgGCa -3'
miRNA:   3'- -CCCGUCGCGacgCGCa-------------UGGACGaCGa -5'
11602 3' -60.3 NC_003085.1 + 12392 0.68 0.292322
Target:  5'- aGGGCcgGGUGCUGCugcucgacccgGCGggGCC-GCUGCg -3'
miRNA:   3'- -CCCG--UCGCGACG-----------CGCa-UGGaCGACGa -5'
11602 3' -60.3 NC_003085.1 + 12457 0.66 0.407195
Target:  5'- aGGuCAGCGCUgggGCGCcagcaGUGCCcUGCUGg- -3'
miRNA:   3'- cCC-GUCGCGA---CGCG-----CAUGG-ACGACga -5'
11602 3' -60.3 NC_003085.1 + 14926 0.66 0.407195
Target:  5'- uGGUGGCGCU-CGCG-GCCgcugUGUUGCUg -3'
miRNA:   3'- cCCGUCGCGAcGCGCaUGG----ACGACGA- -5'
11602 3' -60.3 NC_003085.1 + 18356 0.69 0.267198
Target:  5'- gGGGCGGUgcaggccguggagucGCugucccUGCGCGUGCCUGagggUGCg -3'
miRNA:   3'- -CCCGUCG---------------CG------ACGCGCAUGGACg---ACGa -5'
11602 3' -60.3 NC_003085.1 + 19218 0.69 0.238895
Target:  5'- gGGGCugGGCGCcGCGCaagGCCUGC-GCc -3'
miRNA:   3'- -CCCG--UCGCGaCGCGca-UGGACGaCGa -5'
11602 3' -60.3 NC_003085.1 + 21480 0.66 0.371619
Target:  5'- aGGGCGGC-CUGCGCG-GCgUGgUGg- -3'
miRNA:   3'- -CCCGUCGcGACGCGCaUGgACgACga -5'
11602 3' -60.3 NC_003085.1 + 22199 0.7 0.209822
Target:  5'- aGGCcgaGGUGCaGgGCG-ACCUGCUGCg -3'
miRNA:   3'- cCCG---UCGCGaCgCGCaUGGACGACGa -5'
11602 3' -60.3 NC_003085.1 + 24238 0.66 0.416417
Target:  5'- aGGGCGGCGCcgGUGaugagGUACCaGCcguacUGCUc -3'
miRNA:   3'- -CCCGUCGCGa-CGCg----CAUGGaCG-----ACGA- -5'
11602 3' -60.3 NC_003085.1 + 25755 0.75 0.101764
Target:  5'- gGGGCcgucuugacggaggaGGCuGCUGCGCGgGCCcGCUGCg -3'
miRNA:   3'- -CCCG---------------UCG-CGACGCGCaUGGaCGACGa -5'
11602 3' -60.3 NC_003085.1 + 25806 0.8 0.042774
Target:  5'- uGGGCGGCGUucgccUGCGCG-GCCUGCUcGCg -3'
miRNA:   3'- -CCCGUCGCG-----ACGCGCaUGGACGA-CGa -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.