miRNA display CGI


Results 1 - 20 of 21 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
1377 3' -58.4 NC_001335.1 + 49816 0.66 0.553529
Target:  5'- cGCGCCAcGUCGAUGUuguccGGgUCUGCg-- -3'
miRNA:   3'- -CGCGGUcCAGUUGCG-----CCgAGACGagc -5'
1377 3' -58.4 NC_001335.1 + 17204 0.66 0.542971
Target:  5'- aGCGCCGGGaUguGCGgGGCcagaCUGgUCa -3'
miRNA:   3'- -CGCGGUCC-AguUGCgCCGa---GACgAGc -5'
1377 3' -58.4 NC_001335.1 + 8847 0.66 0.522066
Target:  5'- --cCCAGGUCGAgcUGCGGgUCUGgCUUGc -3'
miRNA:   3'- cgcGGUCCAGUU--GCGCCgAGAC-GAGC- -5'
1377 3' -58.4 NC_001335.1 + 18043 0.66 0.511729
Target:  5'- uGCGCCuggaucuGGUCGA-GCuGGUUCUGCa-- -3'
miRNA:   3'- -CGCGGu------CCAGUUgCG-CCGAGACGagc -5'
1377 3' -58.4 NC_001335.1 + 48327 0.66 0.501479
Target:  5'- aGCGCCGcaagguGGUCcACGCGGCaUCguagGCg-- -3'
miRNA:   3'- -CGCGGU------CCAGuUGCGCCG-AGa---CGagc -5'
1377 3' -58.4 NC_001335.1 + 13022 0.66 0.501479
Target:  5'- aGUGCCAGGcggauagacaaUCGggGCGCGGUgUCggucGCUCGc -3'
miRNA:   3'- -CGCGGUCC-----------AGU--UGCGCCG-AGa---CGAGC- -5'
1377 3' -58.4 NC_001335.1 + 5249 0.66 0.500459
Target:  5'- uCGCCAgaucgcuGGUCGACGCGG-UCUGaUUGa -3'
miRNA:   3'- cGCGGU-------CCAGUUGCGCCgAGACgAGC- -5'
1377 3' -58.4 NC_001335.1 + 16379 0.67 0.481257
Target:  5'- aGCGUCGGGgCAGCGUcgaGGCggCUGcCUUGa -3'
miRNA:   3'- -CGCGGUCCaGUUGCG---CCGa-GAC-GAGC- -5'
1377 3' -58.4 NC_001335.1 + 21988 0.67 0.451693
Target:  5'- aUGCCAgcGGUCAcgauggagaACGCucucGGC-CUGCUCGa -3'
miRNA:   3'- cGCGGU--CCAGU---------UGCG----CCGaGACGAGC- -5'
1377 3' -58.4 NC_001335.1 + 34266 0.69 0.369457
Target:  5'- uGCGCC-GGUCGGCGCGGa--UG-UCGa -3'
miRNA:   3'- -CGCGGuCCAGUUGCGCCgagACgAGC- -5'
1377 3' -58.4 NC_001335.1 + 48879 0.69 0.360973
Target:  5'- cGCGUCcGGUCGcCGCGuC-CUGCUCGa -3'
miRNA:   3'- -CGCGGuCCAGUuGCGCcGaGACGAGC- -5'
1377 3' -58.4 NC_001335.1 + 31046 0.69 0.352626
Target:  5'- cGCGCUcGGUgAGCuucuuGCGGUUCggccgGCUCGg -3'
miRNA:   3'- -CGCGGuCCAgUUG-----CGCCGAGa----CGAGC- -5'
1377 3' -58.4 NC_001335.1 + 12123 0.7 0.336345
Target:  5'- gGgGCCAGGUCG--GCGGC-CUGUccuUCGa -3'
miRNA:   3'- -CgCGGUCCAGUugCGCCGaGACG---AGC- -5'
1377 3' -58.4 NC_001335.1 + 18616 0.7 0.328412
Target:  5'- -aGCCAGG--AGCGCGGCccCUGCUUc -3'
miRNA:   3'- cgCGGUCCagUUGCGCCGa-GACGAGc -5'
1377 3' -58.4 NC_001335.1 + 33841 0.7 0.320619
Target:  5'- cCGCCAGGUUGAUGUGGCcgaggUUGCaCGg -3'
miRNA:   3'- cGCGGUCCAGUUGCGCCGa----GACGaGC- -5'
1377 3' -58.4 NC_001335.1 + 36818 0.7 0.312964
Target:  5'- uGCGCCAGGUCuACGaCGGCcCgGUUgGu -3'
miRNA:   3'- -CGCGGUCCAGuUGC-GCCGaGaCGAgC- -5'
1377 3' -58.4 NC_001335.1 + 7879 0.7 0.298074
Target:  5'- gGCuGCCGuGUCAGCGaCGGCcugCUGUUCGu -3'
miRNA:   3'- -CG-CGGUcCAGUUGC-GCCGa--GACGAGC- -5'
1377 3' -58.4 NC_001335.1 + 3113 0.72 0.250296
Target:  5'- cUGUCGGGUCAGCGgGuGCUC-GUUCGa -3'
miRNA:   3'- cGCGGUCCAGUUGCgC-CGAGaCGAGC- -5'
1377 3' -58.4 NC_001335.1 + 2234 0.72 0.231833
Target:  5'- -aGCCGGGUCAguACGUGGCcguucUCUGCg-- -3'
miRNA:   3'- cgCGGUCCAGU--UGCGCCG-----AGACGagc -5'
1377 3' -58.4 NC_001335.1 + 17166 0.75 0.140015
Target:  5'- -gGCCAGGUCGcagGCGCGGUgcugCaGCUCGc -3'
miRNA:   3'- cgCGGUCCAGU---UGCGCCGa---GaCGAGC- -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.