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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 | |||||||
| 5541 | 3' | -49.8 | NC_001806.1 | + | 145291 | 0.66 | 0.997196 |
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Target: 5'- gCCACUCgcgGGU-GGGCUCgUGUUACa -3' miRNA: 3'- gGGUGGGaa-UCAgUCUGAG-ACAAUGa -5' |
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| 5541 | 3' | -49.8 | NC_001806.1 | + | 70951 | 0.66 | 0.996096 |
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Target: 5'- -gCGCCCUUGGUCAG-CUCg---GCc -3' miRNA: 3'- ggGUGGGAAUCAGUCuGAGacaaUGa -5' |
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| 5541 | 3' | -49.8 | NC_001806.1 | + | 32669 | 0.67 | 0.995208 |
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Target: 5'- gCCCACCCgcgAGUggcguggccgaccuUAGcCUCUGggGCg -3' miRNA: 3'- -GGGUGGGaa-UCA--------------GUCuGAGACaaUGa -5' |
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| 5541 | 3' | -49.8 | NC_001806.1 | + | 132836 | 0.68 | 0.986056 |
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Target: 5'- aCCCGCCCgcggccGUCGGGCccgUCUGgacgGCg -3' miRNA: 3'- -GGGUGGGaau---CAGUCUG---AGACaa--UGa -5' |
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| 5541 | 3' | -49.8 | NC_001806.1 | + | 59522 | 0.68 | 0.984246 |
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Target: 5'- aCCACgCCUUAGUUAGGCcgauccgCaGUUACa -3' miRNA: 3'- gGGUG-GGAAUCAGUCUGa------GaCAAUGa -5' |
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| 5541 | 3' | -49.8 | NC_001806.1 | + | 13926 | 0.69 | 0.980098 |
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Target: 5'- cCCCugCUUUuuaaAGaCAGACUUUGUUAUa -3' miRNA: 3'- -GGGugGGAA----UCaGUCUGAGACAAUGa -5' |
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| 5541 | 3' | -49.8 | NC_001806.1 | + | 145345 | 1.1 | 0.010555 |
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Target: 5'- uCCCACCCUUAGUCAGACUCUGUUACUu -3' miRNA: 3'- -GGGUGGGAAUCAGUCUGAGACAAUGA- -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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