miRNA display CGI


Results 1 - 20 of 24 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
8080 3' -57.2 NC_001978.2 + 5944 0.66 0.514089
Target:  5'- cAGGUCGGCGaaCAgaaccuuguCGGCAG-GCAu- -3'
miRNA:   3'- uUCCAGCCGCaaGU---------GCCGUCgCGUuc -5'
8080 3' -57.2 NC_001978.2 + 8955 0.66 0.503426
Target:  5'- gAAGuGUCGGCGUUCGgCGaaCAG-GCGAGg -3'
miRNA:   3'- -UUC-CAGCCGCAAGU-GCc-GUCgCGUUC- -5'
8080 3' -57.2 NC_001978.2 + 18469 0.66 0.49286
Target:  5'- cAGGUUGcCGacucccUUCACGGCAuGCGUAAGc -3'
miRNA:   3'- uUCCAGCcGC------AAGUGCCGU-CGCGUUC- -5'
8080 3' -57.2 NC_001978.2 + 41038 0.66 0.49286
Target:  5'- uGAGua-GGCuGggCGCGGCAGCGCuAGa -3'
miRNA:   3'- -UUCcagCCG-CaaGUGCCGUCGCGuUC- -5'
8080 3' -57.2 NC_001978.2 + 27109 0.66 0.49286
Target:  5'- cGGaGUCGGCGggCAUuguggccugGGCGGUGCGc- -3'
miRNA:   3'- uUC-CAGCCGCaaGUG---------CCGUCGCGUuc -5'
8080 3' -57.2 NC_001978.2 + 15762 0.66 0.472043
Target:  5'- gAAGGUgucggaCGGCGUUCGUGGCgcAGCGUg-- -3'
miRNA:   3'- -UUCCA------GCCGCAAGUGCCG--UCGCGuuc -5'
8080 3' -57.2 NC_001978.2 + 22126 0.67 0.44168
Target:  5'- cAGGUCGuGCGcUUCGCugcccaGGuCGGCGCGAa -3'
miRNA:   3'- uUCCAGC-CGC-AAGUG------CC-GUCGCGUUc -5'
8080 3' -57.2 NC_001978.2 + 24152 0.67 0.430827
Target:  5'- cAGGUucagccgacCGGCGUugacuccggUUACGGCcugggugAGCGCAAGa -3'
miRNA:   3'- uUCCA---------GCCGCA---------AGUGCCG-------UCGCGUUC- -5'
8080 3' -57.2 NC_001978.2 + 37816 0.67 0.412454
Target:  5'- aGGGGUCGcCGUcgUCG-GGCAGCGCGc- -3'
miRNA:   3'- -UUCCAGCcGCA--AGUgCCGUCGCGUuc -5'
8080 3' -57.2 NC_001978.2 + 38057 0.67 0.412454
Target:  5'- -cGGUgacgcucgaaUGGCGUUCGCGGUcggcGGCGUAu- -3'
miRNA:   3'- uuCCA----------GCCGCAAGUGCCG----UCGCGUuc -5'
8080 3' -57.2 NC_001978.2 + 28566 0.68 0.366501
Target:  5'- cAAGGUCGGCaa--GCGGCAGCa---- -3'
miRNA:   3'- -UUCCAGCCGcaagUGCCGUCGcguuc -5'
8080 3' -57.2 NC_001978.2 + 5711 0.68 0.366501
Target:  5'- uGGaGUCGGCGUcagccUCACcgaaGGCAGCGUuGGc -3'
miRNA:   3'- uUC-CAGCCGCA-----AGUG----CCGUCGCGuUC- -5'
8080 3' -57.2 NC_001978.2 + 37493 0.69 0.324198
Target:  5'- --cGUCGGCGUagGCGG-AGCGCAc- -3'
miRNA:   3'- uucCAGCCGCAagUGCCgUCGCGUuc -5'
8080 3' -57.2 NC_001978.2 + 38587 0.7 0.300613
Target:  5'- --cGUCGGCGUUCgggACGGCggAGCGCc-- -3'
miRNA:   3'- uucCAGCCGCAAG---UGCCG--UCGCGuuc -5'
8080 3' -57.2 NC_001978.2 + 30796 0.7 0.293051
Target:  5'- -cGGUCGaCGUcgaCACGGCGGCGUGAa -3'
miRNA:   3'- uuCCAGCcGCAa--GUGCCGUCGCGUUc -5'
8080 3' -57.2 NC_001978.2 + 31087 0.71 0.257468
Target:  5'- -cGGUCaGC-UUCACGGCAGCGaCAu- -3'
miRNA:   3'- uuCCAGcCGcAAGUGCCGUCGC-GUuc -5'
8080 3' -57.2 NC_001978.2 + 22436 0.72 0.219523
Target:  5'- --aGUCGGCGUUCAUGuaAGCGCu-- -3'
miRNA:   3'- uucCAGCCGCAAGUGCcgUCGCGuuc -5'
8080 3' -57.2 NC_001978.2 + 17316 0.72 0.219523
Target:  5'- -uGGUCGGCGUaUCcgGCGGuCGGCGCucAGg -3'
miRNA:   3'- uuCCAGCCGCA-AG--UGCC-GUCGCGu-UC- -5'
8080 3' -57.2 NC_001978.2 + 36564 0.72 0.213683
Target:  5'- uGGGUCGGCGU----GGCAGUGCAc- -3'
miRNA:   3'- uUCCAGCCGCAagugCCGUCGCGUuc -5'
8080 3' -57.2 NC_001978.2 + 34133 0.73 0.186455
Target:  5'- -uGGUUGGCGUUCACaaGGaCGGCGCc-- -3'
miRNA:   3'- uuCCAGCCGCAAGUG--CC-GUCGCGuuc -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.