miRNA display CGI


Results 1 - 20 of 32 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
12780 3' -49.7 NC_003387.1 + 46763 0.74 0.597402
Target:  5'- gGGUCGAgcgacucgcGGUUCGgCGAGcUGAUCGa -3'
miRNA:   3'- gCCAGCU---------UCAAGUgGCUCaACUAGCg -5'
12780 3' -49.7 NC_003387.1 + 33468 0.78 0.39791
Target:  5'- gCGGcCGAAG-UCGCCGAGgcGGUCGg -3'
miRNA:   3'- -GCCaGCUUCaAGUGGCUCaaCUAGCg -5'
12780 3' -49.7 NC_003387.1 + 10945 0.67 0.941414
Target:  5'- gCGGUCGAcucugAGacuuucCGCCGGG-UGAUCGg -3'
miRNA:   3'- -GCCAGCU-----UCaa----GUGGCUCaACUAGCg -5'
12780 3' -49.7 NC_003387.1 + 15271 0.67 0.930615
Target:  5'- uCGGUCGA----CGCCGAGgaGAugUUGCa -3'
miRNA:   3'- -GCCAGCUucaaGUGGCUCaaCU--AGCG- -5'
12780 3' -49.7 NC_003387.1 + 2750 0.68 0.91865
Target:  5'- cCGGUgaacgugcgCGAGG-UCACCGAcgUGAUCGa -3'
miRNA:   3'- -GCCA---------GCUUCaAGUGGCUcaACUAGCg -5'
12780 3' -49.7 NC_003387.1 + 47463 0.68 0.905522
Target:  5'- gCGaGUCGGcuguugAGUUCGCCGucggccAGcgGGUCGCg -3'
miRNA:   3'- -GC-CAGCU------UCAAGUGGC------UCaaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 50261 0.75 0.552712
Target:  5'- uGGcCGAcGUgcgCACCGAGgUGAUCGUg -3'
miRNA:   3'- gCCaGCUuCAa--GUGGCUCaACUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 13502 0.66 0.959581
Target:  5'- cCGG-CG-GGUUCGCCG-GUggaGUCGCu -3'
miRNA:   3'- -GCCaGCuUCAAGUGGCuCAac-UAGCG- -5'
12780 3' -49.7 NC_003387.1 + 27250 0.67 0.924778
Target:  5'- gCGGUCGAGGcggC-CCGGcaugccUGGUCGCg -3'
miRNA:   3'- -GCCAGCUUCaa-GuGGCUca----ACUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 39420 0.68 0.890507
Target:  5'- gGGUCGAGGUgaccgggCGCCGcaagcucGGU--AUCGCg -3'
miRNA:   3'- gCCAGCUUCAa------GUGGC-------UCAacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 24662 0.7 0.804374
Target:  5'- aGGUCGccag-CGCCGAGggUGAcUCGCg -3'
miRNA:   3'- gCCAGCuucaaGUGGCUCa-ACU-AGCG- -5'
12780 3' -49.7 NC_003387.1 + 28933 0.69 0.883695
Target:  5'- gCGG-CGAGGUUCACgccUGAGU--GUCGUg -3'
miRNA:   3'- -GCCaGCUUCAAGUG---GCUCAacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 12049 0.66 0.95106
Target:  5'- -cGUCGAcaAGUUCACCGGcGUggUGAauuUCGUc -3'
miRNA:   3'- gcCAGCU--UCAAGUGGCU-CA--ACU---AGCG- -5'
12780 3' -49.7 NC_003387.1 + 38700 0.66 0.959182
Target:  5'- cCGGauucuccUCGggGUaCGCCGGGUUGcccUGCc -3'
miRNA:   3'- -GCC-------AGCuuCAaGUGGCUCAACua-GCG- -5'
12780 3' -49.7 NC_003387.1 + 5150 0.67 0.941414
Target:  5'- uCGGUCGAGcUUCACCGAcacgcGAgUGCg -3'
miRNA:   3'- -GCCAGCUUcAAGUGGCUcaa--CUaGCG- -5'
12780 3' -49.7 NC_003387.1 + 18197 0.7 0.823601
Target:  5'- gGGUCGAcGggCAgcCCGAG--GAUCGCg -3'
miRNA:   3'- gCCAGCUuCaaGU--GGCUCaaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 35598 0.7 0.841977
Target:  5'- cCGGUCGAGG-UCGUCGAGc--GUCGCc -3'
miRNA:   3'- -GCCAGCUUCaAGUGGCUCaacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 46129 0.69 0.859424
Target:  5'- -cGUCGcGGaaCACCGGGUUGccguUCGCg -3'
miRNA:   3'- gcCAGCuUCaaGUGGCUCAACu---AGCG- -5'
12780 3' -49.7 NC_003387.1 + 23369 0.69 0.867775
Target:  5'- aCGGUC-AGG-UCGCCGAGgaUGAagCGCg -3'
miRNA:   3'- -GCCAGcUUCaAGUGGCUCa-ACUa-GCG- -5'
12780 3' -49.7 NC_003387.1 + 1393 0.67 0.936159
Target:  5'- gGGUCGggGUcgCGCuCGaAGUUGugcgaggCGCc -3'
miRNA:   3'- gCCAGCuuCAa-GUG-GC-UCAACua-----GCG- -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.