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 + 24238 0.66 0.416417
Target:  5'- aGGGCGGCGCcgGUGaugagGUACCaGCcguacUGCUc -3'
miRNA:   3'- -CCCGUCGCGa-CGCg----CAUGGaCG-----ACGA- -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 + 14926 0.66 0.407195
Target:  5'- uGGUGGCGCU-CGCG-GCCgcugUGUUGCUg -3'
miRNA:   3'- cCCGUCGCGAcGCGCaUGG----ACGACGA- -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 + 37850 0.66 0.3972
Target:  5'- uGGUAGCGCUGCcuGCGcugGCCgGCcagacgucggaggUGCUg -3'
miRNA:   3'- cCCGUCGCGACG--CGCa--UGGaCG-------------ACGA- -5'
11602 3' -60.3 NC_003085.1 + 28718 0.66 0.389141
Target:  5'- cGGGCAGCagccgguccuGgaGgGCGUacuccagcGCCUGCUGg- -3'
miRNA:   3'- -CCCGUCG----------CgaCgCGCA--------UGGACGACga -5'
11602 3' -60.3 NC_003085.1 + 34269 0.66 0.371619
Target:  5'- cGGcGCGGCGCUG-GCGcACCgGCUcaGCc -3'
miRNA:   3'- -CC-CGUCGCGACgCGCaUGGaCGA--CGa -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 + 11779 0.66 0.370758
Target:  5'- cGGCGGCGCcGCGCuccgggcGUGUCgGCUGCc -3'
miRNA:   3'- cCCGUCGCGaCGCG-------CAUGGaCGACGa -5'
11602 3' -60.3 NC_003085.1 + 27358 0.66 0.363063
Target:  5'- cGGGCucUGCUGgGCG-GCCUGCuucUGCg -3'
miRNA:   3'- -CCCGucGCGACgCGCaUGGACG---ACGa -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 + 771 0.67 0.354643
Target:  5'- -cGCAGuUGCU-UGCG-GCCUGCUGCUg -3'
miRNA:   3'- ccCGUC-GCGAcGCGCaUGGACGACGA- -5'
11602 3' -60.3 NC_003085.1 + 40326 0.67 0.346363
Target:  5'- cGGCaAGgGCUgGCGCGUGCCUcaGUggGCg -3'
miRNA:   3'- cCCG-UCgCGA-CGCGCAUGGA--CGa-CGa -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 + 35939 0.67 0.330221
Target:  5'- gGGGUAGCGCuUGCGgagcuucucgaCGUucGCC-GCUGCc -3'
miRNA:   3'- -CCCGUCGCG-ACGC-----------GCA--UGGaCGACGa -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 + 45153 0.67 0.32236
Target:  5'- aGGuGCAGCGCUgGCGC-UACgUGCUcCUc -3'
miRNA:   3'- -CC-CGUCGCGA-CGCGcAUGgACGAcGA- -5'
11602 3' -60.3 NC_003085.1 + 30338 0.68 0.30706
Target:  5'- uGGCGGaCGCUGuCGCGgggcGCaCUGCgGCg -3'
miRNA:   3'- cCCGUC-GCGAC-GCGCa---UG-GACGaCGa -5'
11602 3' -60.3 NC_003085.1 + 29187 0.68 0.295225
Target:  5'- uGGCAGCGCcGCGaggacgcggagcgcaCGcGCCUGCUGa- -3'
miRNA:   3'- cCCGUCGCGaCGC---------------GCaUGGACGACga -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' 
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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.