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 + 124508 1.11 0.003035
Target:  5'- aUCGGUUUCACCCACACGCCCGAGCACg -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 + 226302 0.73 0.641628
Target:  5'- cCGGUccugaUUC-CCCGCAUGCCCu-GCACa -3'
miRNA:   3'- aGCCA-----AAGuGGGUGUGCGGGcuCGUG- -5'
1653 3' -56.7 NC_001347.2 + 172532 0.73 0.641628
Target:  5'- gUCGGgg--GCCCGCugGCUCG-GCGCg -3'
miRNA:   3'- -AGCCaaagUGGGUGugCGGGCuCGUG- -5'
1653 3' -56.7 NC_001347.2 + 105968 0.72 0.657474
Target:  5'- gUCGGcgagccgcgcaCGCCCGCGCGgCCGcAGCACg -3'
miRNA:   3'- -AGCCaaa--------GUGGGUGUGCgGGC-UCGUG- -5'
1653 3' -56.7 NC_001347.2 + 112601 0.72 0.661429
Target:  5'- aCGGUggUUCAUCCAUAcCGCCCGGagagucGCGCc -3'
miRNA:   3'- aGCCA--AAGUGGGUGU-GCGGGCU------CGUG- -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 + 128324 0.71 0.700702
Target:  5'- gCGGcucgucgUCACCCGCGuguggccgccgcUGCUCGAGCACc -3'
miRNA:   3'- aGCCaa-----AGUGGGUGU------------GCGGGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 128536 0.71 0.720045
Target:  5'- -aGGUgUUCAUCgACcuGCGCaCCGAGCACa -3'
miRNA:   3'- agCCA-AAGUGGgUG--UGCG-GGCUCGUG- -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 + 40227 0.71 0.720045
Target:  5'- cCGGca-CACCCgccACACGCCCGcgacacacccGGCACg -3'
miRNA:   3'- aGCCaaaGUGGG---UGUGCGGGC----------UCGUG- -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 + 112117 0.71 0.739106
Target:  5'- cUGGcgUUCA-CCACGCcgGCCUGAGCGCg -3'
miRNA:   3'- aGCCa-AAGUgGGUGUG--CGGGCUCGUG- -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 + 140404 0.7 0.76702
Target:  5'- -gGGUgcgCACCCGCuuGCCCGuGGUGCc -3'
miRNA:   3'- agCCAaa-GUGGGUGugCGGGC-UCGUG- -5'
1653 3' -56.7 NC_001347.2 + 189429 0.7 0.770671
Target:  5'- cCGGUgcugggcaagcgagUCGCgacgCCGCAcgcgucCGCCCGAGCGCa -3'
miRNA:   3'- aGCCAa-------------AGUG----GGUGU------GCGGGCUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 116882 0.7 0.785081
Target:  5'- uUCGc---CGCCCGCGCGCCCcccGGGCAa -3'
miRNA:   3'- -AGCcaaaGUGGGUGUGCGGG---CUCGUg -5'
1653 3' -56.7 NC_001347.2 + 130955 0.7 0.793921
Target:  5'- cUCGGUgguaaugcgCugCCAgACGCCCGAuUACg -3'
miRNA:   3'- -AGCCAaa-------GugGGUgUGCGGGCUcGUG- -5'
1653 3' -56.7 NC_001347.2 + 178720 0.69 0.811184
Target:  5'- cCGGggcUCAgCCuucuCACGCCCcGGCGCa -3'
miRNA:   3'- aGCCaa-AGUgGGu---GUGCGGGcUCGUG- -5'
1653 3' -56.7 NC_001347.2 + 188739 0.69 0.835915
Target:  5'- cCGcGUUUCACCgACACGCUgGuGgACa -3'
miRNA:   3'- aGC-CAAAGUGGgUGUGCGGgCuCgUG- -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.