miRNA display CGI


Results 1 - 20 of 26 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
12135 5' -53.9 NC_003309.1 + 46782 0.66 0.811352
Target:  5'- gGCCGCUGCGcgagcUGUCaccgcaacgggcgUCACUUcgccaGCGCg -3'
miRNA:   3'- -CGGCGGCGCa----ACAGca-----------AGUGAA-----CGCG- -5'
12135 5' -53.9 NC_003309.1 + 53247 0.66 0.79794
Target:  5'- uUCGCCGCGUgacaGUCacggcagaUCGCUUGCa- -3'
miRNA:   3'- cGGCGGCGCAa---CAGca------AGUGAACGcg -5'
12135 5' -53.9 NC_003309.1 + 30977 0.66 0.794044
Target:  5'- aCCGCaacCGCGUgcgacguuuucagGUCGaucagggaCACUUGCGCa -3'
miRNA:   3'- cGGCG---GCGCAa------------CAGCaa------GUGAACGCG- -5'
12135 5' -53.9 NC_003309.1 + 22445 0.66 0.768086
Target:  5'- cGCaCGCUGcCGgcGUCGagCGCggcGCGCg -3'
miRNA:   3'- -CG-GCGGC-GCaaCAGCaaGUGaa-CGCG- -5'
12135 5' -53.9 NC_003309.1 + 11444 0.67 0.74746
Target:  5'- cGCCGCCGUcuGUUG-CGgaCACgaaGCGg -3'
miRNA:   3'- -CGGCGGCG--CAACaGCaaGUGaa-CGCg -5'
12135 5' -53.9 NC_003309.1 + 5588 0.67 0.736963
Target:  5'- cGUCGUCGCGaaugaacgccUUGUC-UUCGCgcGCGCc -3'
miRNA:   3'- -CGGCGGCGC----------AACAGcAAGUGaaCGCG- -5'
12135 5' -53.9 NC_003309.1 + 5003 0.67 0.735908
Target:  5'- aGCCGCCauGCGUUcagcggcuuccgcG-CGUUCGaucUGCGCg -3'
miRNA:   3'- -CGGCGG--CGCAA-------------CaGCAAGUga-ACGCG- -5'
12135 5' -53.9 NC_003309.1 + 19301 0.68 0.694032
Target:  5'- cGCCGagCGCGUUuUCGgcgCGCacGCGCg -3'
miRNA:   3'- -CGGCg-GCGCAAcAGCaa-GUGaaCGCG- -5'
12135 5' -53.9 NC_003309.1 + 5138 0.68 0.68312
Target:  5'- cGCCGCCGCGa----GcgCACguaccaUGCGCg -3'
miRNA:   3'- -CGGCGGCGCaacagCaaGUGa-----ACGCG- -5'
12135 5' -53.9 NC_003309.1 + 4531 0.69 0.63909
Target:  5'- cCCGCCuGCG-UGUCcuuuacCGCUUGCGUg -3'
miRNA:   3'- cGGCGG-CGCaACAGcaa---GUGAACGCG- -5'
12135 5' -53.9 NC_003309.1 + 2215 0.69 0.616994
Target:  5'- cGCCGUCGauuuuGUUGUCGUUacccuGCUUgaucggGCGCa -3'
miRNA:   3'- -CGGCGGCg----CAACAGCAAg----UGAA------CGCG- -5'
12135 5' -53.9 NC_003309.1 + 10591 0.69 0.592754
Target:  5'- uGCCGUCGCGacaug---CGCUUGCGCc -3'
miRNA:   3'- -CGGCGGCGCaacagcaaGUGAACGCG- -5'
12135 5' -53.9 NC_003309.1 + 11089 0.7 0.555641
Target:  5'- aCUGCuCGCGUUGUCGcggaacagcaaccagUUCGCggccGCGCc -3'
miRNA:   3'- cGGCG-GCGCAACAGC---------------AAGUGaa--CGCG- -5'
12135 5' -53.9 NC_003309.1 + 17804 0.7 0.540548
Target:  5'- cGUCGCCGUGUgcgCGUUCgGCgugauacgGCGCa -3'
miRNA:   3'- -CGGCGGCGCAacaGCAAG-UGaa------CGCG- -5'
12135 5' -53.9 NC_003309.1 + 9566 0.71 0.508702
Target:  5'- cGCCGCUGCGgcggcUUGUgCGUauUCGCggaucgaacUGCGCg -3'
miRNA:   3'- -CGGCGGCGC-----AACA-GCA--AGUGa--------ACGCG- -5'
12135 5' -53.9 NC_003309.1 + 39973 0.71 0.508702
Target:  5'- cGCCGUcugccucgcggCGCGcUUGUCGagCACcugUUGCGCg -3'
miRNA:   3'- -CGGCG-----------GCGC-AACAGCaaGUG---AACGCG- -5'
12135 5' -53.9 NC_003309.1 + 22604 0.71 0.508702
Target:  5'- gGCUGCCGUGcagUGUCGgacaGCgacGCGCa -3'
miRNA:   3'- -CGGCGGCGCa--ACAGCaag-UGaa-CGCG- -5'
12135 5' -53.9 NC_003309.1 + 10756 0.71 0.498261
Target:  5'- cGCCGCCGCcucaagcGcCGUccgUCGCUgcUGCGCg -3'
miRNA:   3'- -CGGCGGCGcaa----CaGCA---AGUGA--ACGCG- -5'
12135 5' -53.9 NC_003309.1 + 10899 0.71 0.494111
Target:  5'- cCCGCCGCGgucgcgGUCGccgcgcguuccgcUCGCUcGCGCg -3'
miRNA:   3'- cGGCGGCGCaa----CAGCa------------AGUGAaCGCG- -5'
12135 5' -53.9 NC_003309.1 + 48706 0.71 0.487916
Target:  5'- uGCCaauGCCGCGUgcgCGaUCGCUgcgcUGCGCu -3'
miRNA:   3'- -CGG---CGGCGCAacaGCaAGUGA----ACGCG- -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.