miRNA display CGI


Results 1 - 20 of 80 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
12843 3' -53.5 NC_003387.1 + 316 0.66 0.779231
Target:  5'- -aCAGCggGUCGAGGUgGUCGgCCu- -3'
miRNA:   3'- aaGUCGagCAGCUUUAgCAGCgGGug -5'
12843 3' -53.5 NC_003387.1 + 488 0.72 0.422476
Target:  5'- -gCuGCUCGUCGcGAUgCG-CGCCCGCg -3'
miRNA:   3'- aaGuCGAGCAGCuUUA-GCaGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 1387 0.72 0.422476
Target:  5'- cUCAGCggGUCGggGUCG-CGCUCGa -3'
miRNA:   3'- aAGUCGagCAGCuuUAGCaGCGGGUg -5'
12843 3' -53.5 NC_003387.1 + 1449 0.69 0.580938
Target:  5'- cUCGGggucgucgucCUCGUCGAGGUCGUCGagggCCAg -3'
miRNA:   3'- aAGUC----------GAGCAGCUUUAGCAGCg---GGUg -5'
12843 3' -53.5 NC_003387.1 + 2176 0.66 0.789378
Target:  5'- -gCAGCUCGgCGccuUgGUCGCCgACa -3'
miRNA:   3'- aaGUCGAGCaGCuuuAgCAGCGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 2275 0.67 0.726336
Target:  5'- gUCGGCUCGaCGucGUCcUCGCUgGCg -3'
miRNA:   3'- aAGUCGAGCaGCuuUAGcAGCGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 3614 0.67 0.715412
Target:  5'- -aCAGCgggugcgCGUCGAGGugcucgacuUCGUaCGCCUGCg -3'
miRNA:   3'- aaGUCGa------GCAGCUUU---------AGCA-GCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 4765 0.66 0.747877
Target:  5'- -cCAGCUCG-CGGugcuUCG-CGgCCCACa -3'
miRNA:   3'- aaGUCGAGCaGCUuu--AGCaGC-GGGUG- -5'
12843 3' -53.5 NC_003387.1 + 5467 0.69 0.614635
Target:  5'- gUCAGCUCGggcagaUCGuucaaGUCGCCCGg -3'
miRNA:   3'- aAGUCGAGC------AGCuuuagCAGCGGGUg -5'
12843 3' -53.5 NC_003387.1 + 5742 0.8 0.14049
Target:  5'- ---cGCUCGUCG---UCGUCGCCCGCa -3'
miRNA:   3'- aaguCGAGCAGCuuuAGCAGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 5953 0.7 0.53667
Target:  5'- aUCAGCUCGcCGAAccgcgaGUCGcUCGaCCCGg -3'
miRNA:   3'- aAGUCGAGCaGCUU------UAGC-AGC-GGGUg -5'
12843 3' -53.5 NC_003387.1 + 6634 0.68 0.659736
Target:  5'- gUCGGCggcCGUCuuGGGcucGUCGUCGaCCCGCu -3'
miRNA:   3'- aAGUCGa--GCAG--CUU---UAGCAGC-GGGUG- -5'
12843 3' -53.5 NC_003387.1 + 7948 0.76 0.250462
Target:  5'- -cCAGCUUGUCGAGGUCGggcCGCUuCACg -3'
miRNA:   3'- aaGUCGAGCAGCUUUAGCa--GCGG-GUG- -5'
12843 3' -53.5 NC_003387.1 + 8531 0.7 0.55868
Target:  5'- -cCGGCUCG-CGGGuaguuaGUUGCCCGCg -3'
miRNA:   3'- aaGUCGAGCaGCUUuag---CAGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 10186 0.69 0.596628
Target:  5'- -cCAGCUCGgcgUCGGucaugcgggccgcguGAUCgGUCGCCCAg -3'
miRNA:   3'- aaGUCGAGC---AGCU---------------UUAG-CAGCGGGUg -5'
12843 3' -53.5 NC_003387.1 + 10908 0.69 0.619144
Target:  5'- cUCAGCUCGUCGAugaucugccaggCGUgCGCCagguCGCg -3'
miRNA:   3'- aAGUCGAGCAGCUuua---------GCA-GCGG----GUG- -5'
12843 3' -53.5 NC_003387.1 + 11415 0.68 0.648474
Target:  5'- aUCGGCcccgaggugcugUCGUCGGugcUCGU-GCCCGCg -3'
miRNA:   3'- aAGUCG------------AGCAGCUuu-AGCAgCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 11431 0.73 0.384682
Target:  5'- ---cGCUCGUCGAGGuuucgcUCGUCGCCguCg -3'
miRNA:   3'- aaguCGAGCAGCUUU------AGCAGCGGguG- -5'
12843 3' -53.5 NC_003387.1 + 11759 0.75 0.285435
Target:  5'- uUUCAGCUCGgccUCGAucgCGUCGCgCACc -3'
miRNA:   3'- -AAGUCGAGC---AGCUuuaGCAGCGgGUG- -5'
12843 3' -53.5 NC_003387.1 + 13004 0.7 0.54764
Target:  5'- --aGGCgUCGUCGGgcaaGGUCGacagCGCCCGCa -3'
miRNA:   3'- aagUCG-AGCAGCU----UUAGCa---GCGGGUG- -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.