miRNA display CGI


Results 1 - 20 of 63 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
12451 3' -58.6 NC_003324.1 + 35853 0.67 0.52345
Target:  5'- uUCGaccuGCG-CCugGCGaACAGUggCGCGCCa -3'
miRNA:   3'- -AGC----CGCaGGugUGCgUGUCA--GCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 19384 0.68 0.444579
Target:  5'- aUCGaCG-CCG-GCGCGC-GUCGCGCCg -3'
miRNA:   3'- -AGCcGCaGGUgUGCGUGuCAGCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 23167 0.68 0.447419
Target:  5'- cCGGCGcCCACGguauggucggcgaGCGCGGUaccgcucugcaucgUGCGCCa -3'
miRNA:   3'- aGCCGCaGGUGUg------------CGUGUCA--------------GCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 30262 0.68 0.454085
Target:  5'- aUCGGCGaugaugcgggCCAag-GCACGGUCGCccaaGCCg -3'
miRNA:   3'- -AGCCGCa---------GGUgugCGUGUCAGCG----CGG- -5'
12451 3' -58.6 NC_003324.1 + 7203 0.67 0.483241
Target:  5'- aUGGCGUCCcuuugACAcccCGCACuGUCGCuugGCUc -3'
miRNA:   3'- aGCCGCAGG-----UGU---GCGUGuCAGCG---CGG- -5'
12451 3' -58.6 NC_003324.1 + 42403 0.67 0.49316
Target:  5'- gUCGcGgGUCCGCAacaGCGCca--GCGCCa -3'
miRNA:   3'- -AGC-CgCAGGUGUg--CGUGucagCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 2709 0.67 0.5072
Target:  5'- gUCGGCGgcggcagucUCCaagcgauagccgaucGCGCGCccACAGUgGCGCa -3'
miRNA:   3'- -AGCCGC---------AGG---------------UGUGCG--UGUCAgCGCGg -5'
12451 3' -58.6 NC_003324.1 + 18805 0.67 0.513269
Target:  5'- gCGG-GUCCAUgGCGCGgcgaaGGUCGgCGCCa -3'
miRNA:   3'- aGCCgCAGGUG-UGCGUg----UCAGC-GCGG- -5'
12451 3' -58.6 NC_003324.1 + 30758 0.67 0.52345
Target:  5'- aCGGaag-CACGgGCGCGGUCcuGCGCCg -3'
miRNA:   3'- aGCCgcagGUGUgCGUGUCAG--CGCGG- -5'
12451 3' -58.6 NC_003324.1 + 42283 0.69 0.390011
Target:  5'- gCGG-GUCgGCaACGCugAGU-GCGCCg -3'
miRNA:   3'- aGCCgCAGgUG-UGCGugUCAgCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 20266 0.7 0.36442
Target:  5'- cCGGCGUCaUACGgGCuCAG-CGgGCCa -3'
miRNA:   3'- aGCCGCAG-GUGUgCGuGUCaGCgCGG- -5'
12451 3' -58.6 NC_003324.1 + 24081 0.7 0.36442
Target:  5'- cCGGUGcgCUGCGC-CACGGUgGCGCUg -3'
miRNA:   3'- aGCCGCa-GGUGUGcGUGUCAgCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 15127 0.73 0.242046
Target:  5'- cUCGGCGUCgACACgGCGCcacgugaaaaGGcUCGcCGCCg -3'
miRNA:   3'- -AGCCGCAGgUGUG-CGUG----------UC-AGC-GCGG- -5'
12451 3' -58.6 NC_003324.1 + 31618 0.73 0.242046
Target:  5'- cUGGCGUUgGCAUGCACccacUCGCGCa -3'
miRNA:   3'- aGCCGCAGgUGUGCGUGuc--AGCGCGg -5'
12451 3' -58.6 NC_003324.1 + 40047 0.71 0.294827
Target:  5'- gUCGGcCGUCCAC-CGU--AGUUGCGCg -3'
miRNA:   3'- -AGCC-GCAGGUGuGCGugUCAGCGCGg -5'
12451 3' -58.6 NC_003324.1 + 35394 0.71 0.294827
Target:  5'- cUCGGcCG-CCGCGCGCAUGGUUuccuCGCCc -3'
miRNA:   3'- -AGCC-GCaGGUGUGCGUGUCAGc---GCGG- -5'
12451 3' -58.6 NC_003324.1 + 14467 0.71 0.302021
Target:  5'- aUCGGCGgaCCuuGCugGCACcGUCGCggaaGCCg -3'
miRNA:   3'- -AGCCGCa-GG--UGugCGUGuCAGCG----CGG- -5'
12451 3' -58.6 NC_003324.1 + 37993 0.71 0.319837
Target:  5'- -aGGCGgCCAUgccggagcgguugcgGCGCACGGggCGCGUCa -3'
miRNA:   3'- agCCGCaGGUG---------------UGCGUGUCa-GCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 26052 0.7 0.324412
Target:  5'- cCGGCGcUCUAgcuCAaGCGCGGcuUCGCGCCa -3'
miRNA:   3'- aGCCGC-AGGU---GUgCGUGUC--AGCGCGG- -5'
12451 3' -58.6 NC_003324.1 + 41657 0.7 0.353697
Target:  5'- gUCGGCGgcgcgacguagCCgACGCGCACuGUgccaacgguagcgaUGCGCCa -3'
miRNA:   3'- -AGCCGCa----------GG-UGUGCGUGuCA--------------GCGCGG- -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.