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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 | |||||||
| 27549 | 5' | -42.5 | NC_005881.1 | + | 93710 | 0.68 | 1 |
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Target: 5'- gGAAAGAAA--ACCUACA-UGGGUGAAc -3' miRNA: 3'- -UUUUCUUUaaUGGGUGUgACCUAUUU- -5' |
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| 27549 | 5' | -42.5 | NC_005881.1 | + | 57463 | 0.68 | 1 |
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Target: 5'- cGAuuGGAGUUGCaCUGCGgUGGAUAAAc -3' miRNA: 3'- -UUuuCUUUAAUG-GGUGUgACCUAUUU- -5' |
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| 27549 | 5' | -42.5 | NC_005881.1 | + | 98254 | 0.68 | 1 |
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Target: 5'- uGAAGAGAUUauagaaaACCCugAUUGGAg--- -3' miRNA: 3'- uUUUCUUUAA-------UGGGugUGACCUauuu -5' |
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| 27549 | 5' | -42.5 | NC_005881.1 | + | 159043 | 0.67 | 1 |
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Target: 5'- -uGAGAGAUccAUCCACAUUGGGa--- -3' miRNA: 3'- uuUUCUUUAa-UGGGUGUGACCUauuu -5' |
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| 27549 | 5' | -42.5 | NC_005881.1 | + | 107499 | 0.7 | 0.999984 |
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Target: 5'- uGGAGAAAUUAUCCACAgaGG-UGAc -3' miRNA: 3'- uUUUCUUUAAUGGGUGUgaCCuAUUu -5' |
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| 27549 | 5' | -42.5 | NC_005881.1 | + | 77463 | 0.72 | 0.999894 |
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Target: 5'- -uAAGAGAUUACUCGCACaacuacaUGGGUAu- -3' miRNA: 3'- uuUUCUUUAAUGGGUGUG-------ACCUAUuu -5' |
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| 27549 | 5' | -42.5 | NC_005881.1 | + | 107505 | 1.05 | 0.103935 |
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Target: 5'- gAAAAGAAAUUACCCACACUGGAUAAAa -3' miRNA: 3'- -UUUUCUUUAAUGGGUGUGACCUAUUU- -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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