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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 | |||||||
| 27376 | 3' | -45.1 | NC_005857.1 | + | 28803 | 0.66 | 0.995981 |
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Target: 5'- aCUGCcUC-AGUGaACGAAAAGGCUg-- -3' miRNA: 3'- -GAUGaAGuUCAC-UGUUUUUCCGGugu -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 44001 | 0.67 | 0.990759 |
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Target: 5'- -gGCUUCAGGaGACGuuauGGCUACu -3' miRNA: 3'- gaUGAAGUUCaCUGUuuuuCCGGUGu -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 46228 | 0.69 | 0.969477 |
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Target: 5'- -cGCUgCAGGcacUGuuuaACAGAAAGGCCGCAg -3' miRNA: 3'- gaUGAaGUUC---AC----UGUUUUUCCGGUGU- -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 40778 | 0.7 | 0.965849 |
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Target: 5'- -gGCUUCAGGUGGaau-AGGGCgGCu -3' miRNA: 3'- gaUGAAGUUCACUguuuUUCCGgUGu -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 50096 | 0.72 | 0.905219 |
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Target: 5'- aUGCUgaaUCAGGUaACAAGcuGGCCACGa -3' miRNA: 3'- gAUGA---AGUUCAcUGUUUuuCCGGUGU- -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 15760 | 0.73 | 0.88186 |
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Target: 5'- cCUGCUUCAucAGUGA-----AGGCCACu -3' miRNA: 3'- -GAUGAAGU--UCACUguuuuUCCGGUGu -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 41007 | 0.73 | 0.864743 |
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Target: 5'- -aACUUCAAaaGGCAGAGccuGGCCACAg -3' miRNA: 3'- gaUGAAGUUcaCUGUUUUu--CCGGUGU- -5' |
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| 27376 | 3' | -45.1 | NC_005857.1 | + | 31214 | 1.11 | 0.007405 |
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Target: 5'- cCUACUUCAAGUGACAAAAAGGCCACAg -3' miRNA: 3'- -GAUGAAGUUCACUGUUUUUCCGGUGU- -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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