miRNA display CGI


Results 21 - 26 of 26 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
30491 5' -59.2 NC_006548.1 + 3459 0.66 0.370285
Target:  5'- cGCCGUgGCCuucaccagGUUCUUUCGaGCguccaGGCUGg -3'
miRNA:   3'- aCGGCGgCGG--------UAGGAAAGC-CG-----UCGAC- -5'
30491 5' -59.2 NC_006548.1 + 24990 0.66 0.37918
Target:  5'- cGCCGCCgacGCCAaCCUa--GGUGGCUu -3'
miRNA:   3'- aCGGCGG---CGGUaGGAaagCCGUCGAc -5'
30491 5' -59.2 NC_006548.1 + 20337 0.66 0.37918
Target:  5'- gGgCGCCGUCAUCC--UCGGCgaAGUUc -3'
miRNA:   3'- aCgGCGGCGGUAGGaaAGCCG--UCGAc -5'
30491 5' -59.2 NC_006548.1 + 2439 0.66 0.385491
Target:  5'- aGCCGgcucggauggaaaaCCGCCggCCUggCGGguGCg- -3'
miRNA:   3'- aCGGC--------------GGCGGuaGGAaaGCCguCGac -5'
30491 5' -59.2 NC_006548.1 + 8197 0.66 0.388217
Target:  5'- aGCgG-CGCUAUCCagUUcCGGCAGCUc -3'
miRNA:   3'- aCGgCgGCGGUAGGa-AA-GCCGUCGAc -5'
30491 5' -59.2 NC_006548.1 + 21014 0.66 0.391871
Target:  5'- cGCCGUCGCCGgauuucucggaaaagUCCaccugUUUgGGCAGUUc -3'
miRNA:   3'- aCGGCGGCGGU---------------AGG-----AAAgCCGUCGAc -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.