miRNA display CGI


Results 1 - 20 of 20 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
1345 3' -56.7 NC_001335.1 + 18029 0.66 0.630357
Target:  5'- -gUCGAGCUgguUCUGCagCGCcUCU-CGGCc -3'
miRNA:   3'- ugAGCUCGG---AGACG--GCGaAGAuGCCG- -5'
1345 3' -56.7 NC_001335.1 + 10459 0.66 0.630357
Target:  5'- -gUUGAGCC-CUGCgGCUUCcGCugagcuguaGGCg -3'
miRNA:   3'- ugAGCUCGGaGACGgCGAAGaUG---------CCG- -5'
1345 3' -56.7 NC_001335.1 + 2353 0.66 0.608398
Target:  5'- cCUCGA-CCUCgcugGcCCGCUgggCUuCGGCg -3'
miRNA:   3'- uGAGCUcGGAGa---C-GGCGAa--GAuGCCG- -5'
1345 3' -56.7 NC_001335.1 + 15161 0.67 0.575635
Target:  5'- cGCUucgCGGGCCUUcugGCCcaGCUUCagcaGCGGCu -3'
miRNA:   3'- -UGA---GCUCGGAGa--CGG--CGAAGa---UGCCG- -5'
1345 3' -56.7 NC_001335.1 + 24769 0.67 0.575635
Target:  5'- -aUCGAGCUUC-GCCGCaaggacaUCguggacgACGGCa -3'
miRNA:   3'- ugAGCUCGGAGaCGGCGa------AGa------UGCCG- -5'
1345 3' -56.7 NC_001335.1 + 38597 0.67 0.564795
Target:  5'- aACaaGuGCCUgUGCCcCUUCcACGGCg -3'
miRNA:   3'- -UGagCuCGGAgACGGcGAAGaUGCCG- -5'
1345 3' -56.7 NC_001335.1 + 2942 0.67 0.532631
Target:  5'- -gUCGGGCCaUCUGCCag-UCgguCGGCu -3'
miRNA:   3'- ugAGCUCGG-AGACGGcgaAGau-GCCG- -5'
1345 3' -56.7 NC_001335.1 + 5892 0.68 0.511556
Target:  5'- cGCUCGGGCCuggUCUGCCuGCcgaUACcGCa -3'
miRNA:   3'- -UGAGCUCGG---AGACGG-CGaagAUGcCG- -5'
1345 3' -56.7 NC_001335.1 + 32947 0.68 0.511556
Target:  5'- gGCUCcuGAGCCUgaGaCCGCgccgUCggcgACGGUg -3'
miRNA:   3'- -UGAG--CUCGGAgaC-GGCGa---AGa---UGCCG- -5'
1345 3' -56.7 NC_001335.1 + 19463 0.68 0.511556
Target:  5'- uGCUUGAGCCguucCUGCuCGCgcUUGCaGCg -3'
miRNA:   3'- -UGAGCUCGGa---GACG-GCGaaGAUGcCG- -5'
1345 3' -56.7 NC_001335.1 + 16543 0.68 0.501148
Target:  5'- --aCGGGCCUCgGCCcuguGCUcgCUAcCGGCa -3'
miRNA:   3'- ugaGCUCGGAGaCGG----CGAa-GAU-GCCG- -5'
1345 3' -56.7 NC_001335.1 + 48849 0.69 0.440856
Target:  5'- cCUCGAGgCUUgcGCCGCccgCUACGGg -3'
miRNA:   3'- uGAGCUCgGAGa-CGGCGaa-GAUGCCg -5'
1345 3' -56.7 NC_001335.1 + 49392 0.69 0.431209
Target:  5'- gGCggCGAGg-UUUGCCGCUaCUACGGCc -3'
miRNA:   3'- -UGa-GCUCggAGACGGCGAaGAUGCCG- -5'
1345 3' -56.7 NC_001335.1 + 26173 0.7 0.358739
Target:  5'- cCUgGAGCCcgCUGCCGCUUgaCUGCGc- -3'
miRNA:   3'- uGAgCUCGGa-GACGGCGAA--GAUGCcg -5'
1345 3' -56.7 NC_001335.1 + 9935 0.71 0.310248
Target:  5'- gGCUUGAGCC---GCCGCguacuccUCUGCGGUc -3'
miRNA:   3'- -UGAGCUCGGagaCGGCGa------AGAUGCCG- -5'
1345 3' -56.7 NC_001335.1 + 31771 0.73 0.266909
Target:  5'- aGCUCGcgcuGCCUCgcggGCCuGCUUgcGCGGCa -3'
miRNA:   3'- -UGAGCu---CGGAGa---CGG-CGAAgaUGCCG- -5'
1345 3' -56.7 NC_001335.1 + 33999 0.73 0.26018
Target:  5'- cCUUGAGCaCUCgguggGCuCGCUUCUGCuugGGCa -3'
miRNA:   3'- uGAGCUCG-GAGa----CG-GCGAAGAUG---CCG- -5'
1345 3' -56.7 NC_001335.1 + 9887 0.74 0.216901
Target:  5'- gACUCGAugGCCggCUGUgGCUUCgGCGGUg -3'
miRNA:   3'- -UGAGCU--CGGa-GACGgCGAAGaUGCCG- -5'
1345 3' -56.7 NC_001335.1 + 43051 0.75 0.189885
Target:  5'- cUUCGAGCCUCUGCCugaacCUgacaaaUGCGGCu -3'
miRNA:   3'- uGAGCUCGGAGACGGc----GAag----AUGCCG- -5'
1345 3' -56.7 NC_001335.1 + 11014 1.12 0.00041
Target:  5'- cACUCGAGCCUCUGCCGCUUCUACGGCg -3'
miRNA:   3'- -UGAGCUCGGAGACGGCGAAGAUGCCG- -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.