miRNA display CGI


Results 1 - 16 of 16 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
1498 3' -57.2 NC_001335.1 + 41876 0.67 0.586718
Target:  5'- uCCGGGUGCCgcuguaCGGGGacgcugGCgggcacacagauguuCUGCUgaGCCa -3'
miRNA:   3'- -GGCCCACGGa-----GCCUCa-----UG---------------GACGA--UGG- -5'
1498 3' -57.2 NC_001335.1 + 33462 0.67 0.582437
Target:  5'- aUCGGGUGgauccCCUCGGAGacuCCUGgcauCUucGCCa -3'
miRNA:   3'- -GGCCCAC-----GGAGCCUCau-GGAC----GA--UGG- -5'
1498 3' -57.2 NC_001335.1 + 13281 0.67 0.540056
Target:  5'- gCCGGGaUGCCgguauucgaCGGccuGGUccGCUUGUUGCCa -3'
miRNA:   3'- -GGCCC-ACGGa--------GCC---UCA--UGGACGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 1307 0.68 0.529615
Target:  5'- aCCGGugacGCCUCcG-GUACCggcGCUGCCg -3'
miRNA:   3'- -GGCCca--CGGAGcCuCAUGGa--CGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 4443 0.68 0.519249
Target:  5'- aCCGGcG-GCUUUGGAG-ACC-GCUGCUc -3'
miRNA:   3'- -GGCC-CaCGGAGCCUCaUGGaCGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 26166 0.69 0.458943
Target:  5'- cUCGGG-GCCU-GGA--GCCcGCUGCCg -3'
miRNA:   3'- -GGCCCaCGGAgCCUcaUGGaCGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 51527 0.69 0.448289
Target:  5'- aCCGGGUGgCUgucaaacCGGAGaauCUUGCcGCCg -3'
miRNA:   3'- -GGCCCACgGA-------GCCUCau-GGACGaUGG- -5'
1498 3' -57.2 NC_001335.1 + 1357 0.69 0.439675
Target:  5'- aCCGGG-GUgUUGGGG---CUGCUGCCa -3'
miRNA:   3'- -GGCCCaCGgAGCCUCaugGACGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 11270 0.69 0.439675
Target:  5'- aCGGGUcgaacGCaggaCUCGGGGU-CUUGUUGCCg -3'
miRNA:   3'- gGCCCA-----CG----GAGCCUCAuGGACGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 35519 0.7 0.40167
Target:  5'- uUCGGaUGUCUgGGAagauagcGUGCUUGCUGCCc -3'
miRNA:   3'- -GGCCcACGGAgCCU-------CAUGGACGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 8775 0.7 0.393611
Target:  5'- cCCaGuGGUGCCUCGaugucGAGguuguugGCCUGCcACCa -3'
miRNA:   3'- -GG-C-CCACGGAGC-----CUCa------UGGACGaUGG- -5'
1498 3' -57.2 NC_001335.1 + 16543 0.7 0.393611
Target:  5'- aCGG--GCCUCGGcccuGUGCUcGCUACCg -3'
miRNA:   3'- gGCCcaCGGAGCCu---CAUGGaCGAUGG- -5'
1498 3' -57.2 NC_001335.1 + 9857 0.7 0.38478
Target:  5'- gCCGuGG-GgCUCGGGGaGCCUGggACCg -3'
miRNA:   3'- -GGC-CCaCgGAGCCUCaUGGACgaUGG- -5'
1498 3' -57.2 NC_001335.1 + 9364 0.71 0.359088
Target:  5'- aCGGGauUGCCUCcccAGUACCUGagUACCg -3'
miRNA:   3'- gGCCC--ACGGAGcc-UCAUGGACg-AUGG- -5'
1498 3' -57.2 NC_001335.1 + 23278 0.72 0.318995
Target:  5'- cUCGGGUGaCCgaguUCGGAGUGCCcug-GCCg -3'
miRNA:   3'- -GGCCCAC-GG----AGCCUCAUGGacgaUGG- -5'
1498 3' -57.2 NC_001335.1 + 33629 1.13 0.000379
Target:  5'- uCCGGGUGCCUCGGAGUACCUGCUACCu -3'
miRNA:   3'- -GGCCCACGGAGCCUCAUGGACGAUGG- -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.