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
16721 3' -48.6 NC_004167.1 + 10567 1.08 0.003237
Target:  5'- cGUGCAAACCAUAGCGAAAACAGCCGUu -3'
miRNA:   3'- -CACGUUUGGUAUCGCUUUUGUCGGCA- -5'
16721 3' -48.6 NC_004167.1 + 9653 0.73 0.541234
Target:  5'- gGUGCAGGCCAUuuccGGCGGAucAGCGGCa-- -3'
miRNA:   3'- -CACGUUUGGUA----UCGCUU--UUGUCGgca -5'
16721 3' -48.6 NC_004167.1 + 26516 0.71 0.671115
Target:  5'- uUGC--GCCAUGGCGGccacuaauguaauAAAUAGCCGg -3'
miRNA:   3'- cACGuuUGGUAUCGCU-------------UUUGUCGGCa -5'
16721 3' -48.6 NC_004167.1 + 12801 0.68 0.838
Target:  5'- -gGCAGGCCAggccGCGAuaccucAGCAGCCu- -3'
miRNA:   3'- caCGUUUGGUau--CGCUu-----UUGUCGGca -5'
16721 3' -48.6 NC_004167.1 + 20743 0.67 0.874309
Target:  5'- uUGagaAAGCCGUGGCGAAugcucAAUGGCUGa -3'
miRNA:   3'- cACg--UUUGGUAUCGCUU-----UUGUCGGCa -5'
16721 3' -48.6 NC_004167.1 + 15216 0.67 0.898451
Target:  5'- aUGUGAAuCCAUAucCGGAAACAGUCGUc -3'
miRNA:   3'- cACGUUU-GGUAUc-GCUUUUGUCGGCA- -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.