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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
27736 | 3' | -42.9 | NC_005884.1 | + | 5738 | 0.66 | 0.999442 |
Target: 5'- ------cUCUGGAAUGCUUAuauCCAGGGa -3' miRNA: 3'- auucucaAGGCUUUAUGAAU---GGUUCC- -5' |
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27736 | 3' | -42.9 | NC_005884.1 | + | 14985 | 0.67 | 0.999269 |
Target: 5'- aGGGAGUUCUGAuuuuggauucccaGAUACUUucCCAAcuuGGg -3' miRNA: 3'- aUUCUCAAGGCU-------------UUAUGAAu-GGUU---CC- -5' |
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27736 | 3' | -42.9 | NC_005884.1 | + | 6396 | 0.67 | 0.999095 |
Target: 5'- --uGAGUUCCGAAugccugcagaGUAgUcuCCGAGGa -3' miRNA: 3'- auuCUCAAGGCUU----------UAUgAauGGUUCC- -5' |
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27736 | 3' | -42.9 | NC_005884.1 | + | 14649 | 0.69 | 0.995327 |
Target: 5'- cAGGuGUUCCGccuGAUACUgcgGCCAucgguaaaAGGg -3' miRNA: 3'- aUUCuCAAGGCu--UUAUGAa--UGGU--------UCC- -5' |
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27736 | 3' | -42.9 | NC_005884.1 | + | 31564 | 1.11 | 0.012296 |
Target: 5'- aUAAGAGUUCCGAAAUACUUACCAAGGu -3' miRNA: 3'- -AUUCUCAAGGCUUUAUGAAUGGUUCC- -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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