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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 6090 | 5' | -44.7 | NC_001824.1 | + | 60455 | 0.66 | 0.999894 |
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Target: 5'- uAACCAGGUGAcaauACCaucgGGgguUUGUAAa -3' miRNA: 3'- uUUGGUCCAUU----UGGa---CCauuAACAUU- -5' |
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| 6090 | 5' | -44.7 | NC_001824.1 | + | 29766 | 0.66 | 0.999858 |
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Target: 5'- gGAGcCCGGGgcuGCCUGGUGGUccUGg-- -3' miRNA: 3'- -UUU-GGUCCauuUGGACCAUUA--ACauu -5' |
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| 6090 | 5' | -44.7 | NC_001824.1 | + | 29511 | 0.67 | 0.999591 |
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Target: 5'- cAACCGGGUAccCCUGGUGu------ -3' miRNA: 3'- uUUGGUCCAUuuGGACCAUuaacauu -5' |
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| 6090 | 5' | -44.7 | NC_001824.1 | + | 29665 | 0.67 | 0.999591 |
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Target: 5'- cAAGCCAGGUAAuCCUGGc-------- -3' miRNA: 3'- -UUUGGUCCAUUuGGACCauuaacauu -5' |
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| 6090 | 5' | -44.7 | NC_001824.1 | + | 29253 | 0.67 | 0.999478 |
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Target: 5'- -uACCAGGUuuACCUGGUuuaccUGg-- -3' miRNA: 3'- uuUGGUCCAuuUGGACCAuua--ACauu -5' |
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| 6090 | 5' | -44.7 | NC_001824.1 | + | 30040 | 0.75 | 0.91604 |
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Target: 5'- -cACCuGGUGAACCUGGUGAgccUGg-- -3' miRNA: 3'- uuUGGuCCAUUUGGACCAUUa--ACauu -5' |
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| 6090 | 5' | -44.7 | NC_001824.1 | + | 29374 | 1.04 | 0.037393 |
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Target: 5'- uAAACCAGGUAAACCUGGUAAUUGUAAu -3' miRNA: 3'- -UUUGGUCCAUUUGGACCAUUAACAUU- -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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