miRNA display CGI


Results 1 - 20 of 55 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
1653 3' -56.7 NC_001347.2 + 588 0.68 0.86643
Target:  5'- gUCGGgcgucCACCUagauggguGCGCGCCCGGGagGCg -3'
miRNA:   3'- -AGCCaaa--GUGGG--------UGUGCGGGCUCg-UG- -5'
1653 3' -56.7 NC_001347.2 + 718 0.67 0.906191
Target:  5'- -aGGcggCGCCaGCACGCgCCGuGCACg -3'
miRNA:   3'- agCCaaaGUGGgUGUGCG-GGCuCGUG- -5'
1653 3' -56.7 NC_001347.2 + 2288 0.67 0.900098
Target:  5'- uUCGGguacuGCCCGCugGa-CGGGCACg -3'
miRNA:   3'- -AGCCaaag-UGGGUGugCggGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 2461 0.68 0.853827
Target:  5'- cUGGgacgcgcugcaccugCACCCGCGCGCCgcgcugUGGGCGCg -3'
miRNA:   3'- aGCCaaa------------GUGGGUGUGCGG------GCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 13511 0.71 0.720045
Target:  5'- cCGGgugcUCACCCGCcggGCgGCCCGGGC-Cg -3'
miRNA:   3'- aGCCaa--AGUGGGUG---UG-CGGGCUCGuG- -5'
1653 3' -56.7 NC_001347.2 + 18387 0.71 0.729616
Target:  5'- gCGGUcucaaccuggUCAUCCGCACGCCgGGucGCACc -3'
miRNA:   3'- aGCCAa---------AGUGGGUGUGCGGgCU--CGUG- -5'
1653 3' -56.7 NC_001347.2 + 37917 0.66 0.938079
Target:  5'- gCGGcucggCGCCCACagcgcgGCGCgCGGGUGCa -3'
miRNA:   3'- aGCCaaa--GUGGGUG------UGCGgGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 38051 0.71 0.739106
Target:  5'- gCGccagcgCGCCCAgCACGCCCGcGCGCa -3'
miRNA:   3'- aGCcaaa--GUGGGU-GUGCGGGCuCGUG- -5'
1653 3' -56.7 NC_001347.2 + 39103 0.67 0.910326
Target:  5'- gCGGcgUCACCCGCGCguagaauccguacgGCcguCCGAGCGg -3'
miRNA:   3'- aGCCaaAGUGGGUGUG--------------CG---GGCUCGUg -5'
1653 3' -56.7 NC_001347.2 + 39810 0.66 0.946921
Target:  5'- cCGGgcgcgCACCCAUcuagguggACGCCCGA-CAUc -3'
miRNA:   3'- aGCCaaa--GUGGGUG--------UGCGGGCUcGUG- -5'
1653 3' -56.7 NC_001347.2 + 40227 0.71 0.720045
Target:  5'- cCGGca-CACCCgccACACGCCCGcgacacacccGGCACg -3'
miRNA:   3'- aGCCaaaGUGGG---UGUGCGGGC----------UCGUG- -5'
1653 3' -56.7 NC_001347.2 + 41337 0.67 0.923143
Target:  5'- -aGGcUUUCGCgCACACGauuCCGAGgACg -3'
miRNA:   3'- agCC-AAAGUGgGUGUGCg--GGCUCgUG- -5'
1653 3' -56.7 NC_001347.2 + 44328 0.66 0.933324
Target:  5'- cCGccgUUCucCCCAUcCGUCCGAGCGCc -3'
miRNA:   3'- aGCca-AAGu-GGGUGuGCGGGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 44367 0.69 0.846933
Target:  5'- cCGGccgaUUCGCCCGCcggggcuucuggagaACGCCgGGGCAg -3'
miRNA:   3'- aGCCa---AAGUGGGUG---------------UGCGGgCUCGUg -5'
1653 3' -56.7 NC_001347.2 + 52916 0.72 0.681141
Target:  5'- cCGGUUcgcUgGCgCCACACGCCCgGAGCc- -3'
miRNA:   3'- aGCCAA---AgUG-GGUGUGCGGG-CUCGug -5'
1653 3' -56.7 NC_001347.2 + 58596 0.66 0.938079
Target:  5'- cCGGgg-CAUCCGCuACuCCCGAGCuCa -3'
miRNA:   3'- aGCCaaaGUGGGUG-UGcGGGCUCGuG- -5'
1653 3' -56.7 NC_001347.2 + 65756 0.66 0.938079
Target:  5'- aUGGUg-UACCCG-GCaCCCGAGCACg -3'
miRNA:   3'- aGCCAaaGUGGGUgUGcGGGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 65967 0.74 0.572473
Target:  5'- cUCGGg-UUGCCUGgACGCCUGGGCGCg -3'
miRNA:   3'- -AGCCaaAGUGGGUgUGCGGGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 78411 0.66 0.945651
Target:  5'- gUCGGgcugcugccgccgcCACCCggcccgGCgGCGCCCGAGCGg -3'
miRNA:   3'- -AGCCaaa-----------GUGGG------UG-UGCGGGCUCGUg -5'
1653 3' -56.7 NC_001347.2 + 80500 0.67 0.893786
Target:  5'- cUCGG-----CCCACACGCCguggaaGGGCGCg -3'
miRNA:   3'- -AGCCaaaguGGGUGUGCGGg-----CUCGUG- -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.