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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 2379 | 5' | -56.9 | NC_001416.1 | + | 9153 | 0.69 | 0.384574 |
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Target: 5'- aCCGGGCA-GGgGCagaaAUCUGCCg--- -3' miRNA: 3'- -GGCCCGUaCCgCGcg--UAGACGGaaau -5' |
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| 2379 | 5' | -56.9 | NC_001416.1 | + | 11047 | 0.67 | 0.502329 |
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Target: 5'- gCCGGGCA-GGCG-GCAgggCUGaCgUUUAa -3' miRNA: 3'- -GGCCCGUaCCGCgCGUa--GAC-GgAAAU- -5' |
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| 2379 | 5' | -56.9 | NC_001416.1 | + | 13704 | 0.7 | 0.316907 |
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Target: 5'- aCCGucaGCGUGGgGCGCGUacuggUGCCUUUGc -3' miRNA: 3'- -GGCc--CGUACCgCGCGUAg----ACGGAAAU- -5' |
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| 2379 | 5' | -56.9 | NC_001416.1 | + | 14791 | 1.08 | 0.000538 |
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Target: 5'- aCCGGGCAUGGCGCGCAUCUGCCUUUAc -3' miRNA: 3'- -GGCCCGUACCGCGCGUAGACGGAAAU- -5' |
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| 2379 | 5' | -56.9 | NC_001416.1 | + | 16810 | 0.66 | 0.560275 |
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Target: 5'- aCGGGCaAUGGCcuGCGUAUCUucaacaagcucugucGCCg--- -3' miRNA: 3'- gGCCCG-UACCG--CGCGUAGA---------------CGGaaau -5' |
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| 2379 | 5' | -56.9 | NC_001416.1 | + | 28502 | 0.67 | 0.502329 |
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Target: 5'- -aGGGCAaGGCG-GCGUCaGCCa--- -3' miRNA: 3'- ggCCCGUaCCGCgCGUAGaCGGaaau -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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