miRNA display CGI


Results 1 - 13 of 13 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
12257 3' -58.4 NC_003309.1 + 43609 0.66 0.570839
Target:  5'- uGCUUGuc--CGGGUGCccGUCGGGCAg -3'
miRNA:   3'- gCGAGCuucuGCCCGCG--CAGCUCGUg -5'
12257 3' -58.4 NC_003309.1 + 3310 0.66 0.570839
Target:  5'- aGCgCGGaaAGGCGcaGCGCGUCGAucaGCGCu -3'
miRNA:   3'- gCGaGCU--UCUGCc-CGCGCAGCU---CGUG- -5'
12257 3' -58.4 NC_003309.1 + 17917 0.66 0.564477
Target:  5'- aCGCUCGAGaACGaacGUGCGUCGAacgucaugccgacgaGCGCc -3'
miRNA:   3'- -GCGAGCUUcUGCc--CGCGCAGCU---------------CGUG- -5'
12257 3' -58.4 NC_003309.1 + 10718 0.66 0.560247
Target:  5'- gCGCgagCGAAGcCucGGCGCGcUCGAGCu- -3'
miRNA:   3'- -GCGa--GCUUCuGc-CCGCGC-AGCUCGug -5'
12257 3' -58.4 NC_003309.1 + 37248 0.66 0.52883
Target:  5'- gGCagGGgcaAGGCGGcgcuacagcaGCGCGUCGAGgACg -3'
miRNA:   3'- gCGagCU---UCUGCC----------CGCGCAGCUCgUG- -5'
12257 3' -58.4 NC_003309.1 + 5338 0.66 0.518499
Target:  5'- cCGUUCGAGaGCGGcagcgugcGCGCGcCGAGCuuGCg -3'
miRNA:   3'- -GCGAGCUUcUGCC--------CGCGCaGCUCG--UG- -5'
12257 3' -58.4 NC_003309.1 + 38856 0.67 0.508249
Target:  5'- gCGCUCGGccgaACGGGCGUcucgcUCGAGCu- -3'
miRNA:   3'- -GCGAGCUuc--UGCCCGCGc----AGCUCGug -5'
12257 3' -58.4 NC_003309.1 + 47405 0.67 0.488014
Target:  5'- aGCcacgCGucGACGGGCaacaGUCGGGCAg -3'
miRNA:   3'- gCGa---GCuuCUGCCCGcg--CAGCUCGUg -5'
12257 3' -58.4 NC_003309.1 + 16320 0.68 0.439198
Target:  5'- gCGCUCGAAGuCGGGUaGCGagaCGccGCGCu -3'
miRNA:   3'- -GCGAGCUUCuGCCCG-CGCa--GCu-CGUG- -5'
12257 3' -58.4 NC_003309.1 + 9541 0.68 0.411281
Target:  5'- uCGCggaUCGAAcuGCGcGcCGCGUCGAGCGCg -3'
miRNA:   3'- -GCG---AGCUUc-UGCcC-GCGCAGCUCGUG- -5'
12257 3' -58.4 NC_003309.1 + 6682 0.7 0.33449
Target:  5'- aGCUCGAAaGCGccUGCGUCGAGCGu -3'
miRNA:   3'- gCGAGCUUcUGCccGCGCAGCUCGUg -5'
12257 3' -58.4 NC_003309.1 + 5180 0.7 0.311334
Target:  5'- gCGCUCGAucgccaguuucgAGGCGagcuGCGCGUCGccGCGCg -3'
miRNA:   3'- -GCGAGCU------------UCUGCc---CGCGCAGCu-CGUG- -5'
12257 3' -58.4 NC_003309.1 + 43288 0.75 0.164354
Target:  5'- aGUUCGAcGAUGGcCGCGUCGcAGCACu -3'
miRNA:   3'- gCGAGCUuCUGCCcGCGCAGC-UCGUG- -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.