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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 | |||||||
| 22542 | 5' | -50.8 | NC_005083.1 | + | 3099 | 0.66 | 0.998158 |
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Target: 5'- aGUaacuGACUCUguugaCGAcGAGCUAGACGc -3' miRNA: 3'- aCAgu--CUGAGA-----GCUaCUCGAUCUGUa -5' |
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| 22542 | 5' | -50.8 | NC_005083.1 | + | 77242 | 0.67 | 0.996381 |
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Target: 5'- aUGUCAGACUCagcCGGUcGAGUUgaauacucAGACAc -3' miRNA: 3'- -ACAGUCUGAGa--GCUA-CUCGA--------UCUGUa -5' |
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| 22542 | 5' | -50.8 | NC_005083.1 | + | 84090 | 0.67 | 0.993386 |
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Target: 5'- ---aAGACUCUUGAUcagaAGCUAGACGa -3' miRNA: 3'- acagUCUGAGAGCUAc---UCGAUCUGUa -5' |
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| 22542 | 5' | -50.8 | NC_005083.1 | + | 218266 | 0.7 | 0.968594 |
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Target: 5'- aGUCAGACUCUgaaguuaccugagUGAUGcuguaAGCUGGACc- -3' miRNA: 3'- aCAGUCUGAGA-------------GCUAC-----UCGAUCUGua -5' |
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| 22542 | 5' | -50.8 | NC_005083.1 | + | 42808 | 1.06 | 0.019665 |
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Target: 5'- gUGUCAGACUCUCGAUGAGCUAGACAUc -3' miRNA: 3'- -ACAGUCUGAGAGCUACUCGAUCUGUA- -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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