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 + 11046 0.66 0.963434
Target:  5'- gGGUCG-GGUUgaCGCCGAaccacaGGUCGCa -3'
miRNA:   3'- gCCAGCuUCAA--GUGGCUcaa---CUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 42037 0.66 0.963434
Target:  5'- cCGG-CGGccacCGCCGAGgcggccgUGGUCGCa -3'
miRNA:   3'- -GCCaGCUucaaGUGGCUCa------ACUAGCG- -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 + 38700 0.66 0.959182
Target:  5'- cCGGauucuccUCGggGUaCGCCGGGUUGcccUGCc -3'
miRNA:   3'- -GCC-------AGCuuCAaGUGGCUCAACua-GCG- -5'
12780 3' -49.7 NC_003387.1 + 19962 0.66 0.955459
Target:  5'- gGGUgGuuGcgCAUCGAGUUGAcagcccgaaUCGCc -3'
miRNA:   3'- gCCAgCuuCaaGUGGCUCAACU---------AGCG- -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 + 15945 0.67 0.941414
Target:  5'- gCGcGUCGGccagCGCCGAGUgccGUCGCu -3'
miRNA:   3'- -GC-CAGCUucaaGUGGCUCAac-UAGCG- -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 + 10945 0.67 0.941414
Target:  5'- gCGGUCGAcucugAGacuuucCGCCGGG-UGAUCGg -3'
miRNA:   3'- -GCCAGCU-----UCaa----GUGGCUCaACUAGCg -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'
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 + 27250 0.67 0.924778
Target:  5'- gCGGUCGAGGcggC-CCGGcaugccUGGUCGCg -3'
miRNA:   3'- -GCCAGCUUCaa-GuGGCUca----ACUAGCG- -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 + 52068 0.68 0.898527
Target:  5'- -cGUCGAauGGUUCAUCGGGc--GUCGCu -3'
miRNA:   3'- gcCAGCU--UCAAGUGGCUCaacUAGCG- -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 + 28933 0.69 0.883695
Target:  5'- gCGG-CGAGGUUCACgccUGAGU--GUCGUg -3'
miRNA:   3'- -GCCaGCUUCAAGUG---GCUCAacUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 18811 0.69 0.883695
Target:  5'- gGGUCGGuuugcgcgcAGaUCGCCGAcg-GGUCGCc -3'
miRNA:   3'- gCCAGCU---------UCaAGUGGCUcaaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 1247 0.69 0.883695
Target:  5'- cCGGUCuGgcGUUCGCgGuGUcGGUUGCg -3'
miRNA:   3'- -GCCAG-CuuCAAGUGgCuCAaCUAGCG- -5'
12780 3' -49.7 NC_003387.1 + 24687 0.69 0.875868
Target:  5'- uGGUCGucAGcUCGCCGAG--GAUCGg -3'
miRNA:   3'- gCCAGCu-UCaAGUGGCUCaaCUAGCg -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.