miRNA display CGI


Results 1 - 6 of 6 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
9800 3' -58.1 NC_002593.1 + 39051 0.66 0.650667
Target:  5'- cGgCGuUUCCGGaACGGAUUCGCgGCAAa -3'
miRNA:   3'- aCgGC-GAGGUC-UGUCUGAGCGaCGUU- -5'
9800 3' -58.1 NC_002593.1 + 69624 0.67 0.608278
Target:  5'- cGCCGCUCacccuuucgaCGGACAuGuACUCGCUGa-- -3'
miRNA:   3'- aCGGCGAG----------GUCUGU-C-UGAGCGACguu -5'
9800 3' -58.1 NC_002593.1 + 31009 0.69 0.484782
Target:  5'- cGCggaCGCUUCGGugccGCAGACggCGCUGCAGu -3'
miRNA:   3'- aCG---GCGAGGUC----UGUCUGa-GCGACGUU- -5'
9800 3' -58.1 NC_002593.1 + 1327 0.73 0.303743
Target:  5'- uUGCCGCUCCAGuuGCAGACaaGCUuaAGa -3'
miRNA:   3'- -ACGGCGAGGUC--UGUCUGagCGAcgUU- -5'
9800 3' -58.1 NC_002593.1 + 3070 0.8 0.10228
Target:  5'- cGCUGUUCCAGacGCAGAUUUGCUGCAc -3'
miRNA:   3'- aCGGCGAGGUC--UGUCUGAGCGACGUu -5'
9800 3' -58.1 NC_002593.1 + 11044 1.06 0.001311
Target:  5'- aUGCCGCUCCAGACAGACUCGCUGCAAa -3'
miRNA:   3'- -ACGGCGAGGUCUGUCUGAGCGACGUU- -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.