miRNA display CGI


Results 1 - 7 of 7 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
2352 3' -59.3 NC_001416.1 + 18356 0.66 0.440613
Target:  5'- cCGCUGGUaauggugGgGGcCGUCaGGC-GCUUCAGg -3'
miRNA:   3'- -GCGACCG-------CgUC-GCAG-CCGuCGAAGUC- -5'
2352 3' -59.3 NC_001416.1 + 17242 1.07 0.000406
Target:  5'- uCGCUGGCGCAGCGUCGGCAGCUUCAGc -3'
miRNA:   3'- -GCGACCGCGUCGCAGCCGUCGAAGUC- -5'
2352 3' -59.3 NC_001416.1 + 16855 0.67 0.400304
Target:  5'- uGCUGGaaaCGCagaccguggauuucAGCGUCGGCgcagaagGGCUUCGc -3'
miRNA:   3'- gCGACC---GCG--------------UCGCAGCCG-------UCGAAGUc -5'
2352 3' -59.3 NC_001416.1 + 12669 0.69 0.303272
Target:  5'- gGC-GGCGCAuccGCGUCaGGCGGUacagccaUUCAGg -3'
miRNA:   3'- gCGaCCGCGU---CGCAG-CCGUCG-------AAGUC- -5'
2352 3' -59.3 NC_001416.1 + 12198 0.72 0.186372
Target:  5'- gCGCUGGCGCAGCa--GGCGGauaaaUUCGc -3'
miRNA:   3'- -GCGACCGCGUCGcagCCGUCg----AAGUc -5'
2352 3' -59.3 NC_001416.1 + 6753 0.73 0.158541
Target:  5'- cCGCUGGCGUucAGCG-CGuaGGCUUCGa -3'
miRNA:   3'- -GCGACCGCG--UCGCaGCcgUCGAAGUc -5'
2352 3' -59.3 NC_001416.1 + 3107 0.66 0.441578
Target:  5'- aGCUGGau-GGCGUUGGCGGCa---- -3'
miRNA:   3'- gCGACCgcgUCGCAGCCGUCGaaguc -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.