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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 | |||||||
| 23123 | 5' | -48.8 | NC_005178.1 | + | 20013 | 0.66 | 0.900617 |
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Target: 5'- --cGGCAUGAUGUGCUgccagaucgGGUCgucccAGCGg -3' miRNA: 3'- aauCCGUGUUACACGGa--------UUAGa----UCGC- -5' |
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| 23123 | 5' | -48.8 | NC_005178.1 | + | 14445 | 0.66 | 0.89288 |
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Target: 5'- aUGGGCGCcgggGUGCCggagCUGGUc -3' miRNA: 3'- aAUCCGUGuua-CACGGauuaGAUCGc -5' |
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| 23123 | 5' | -48.8 | NC_005178.1 | + | 18799 | 0.68 | 0.777575 |
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Target: 5'- --cGGCACAuUGUGCCUAuu---GCGu -3' miRNA: 3'- aauCCGUGUuACACGGAUuagauCGC- -5' |
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| 23123 | 5' | -48.8 | NC_005178.1 | + | 18761 | 0.73 | 0.482404 |
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Target: 5'- aUAGGCACAAUGUGCCg---CUuGUc -3' miRNA: 3'- aAUCCGUGUUACACGGauuaGAuCGc -5' |
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| 23123 | 5' | -48.8 | NC_005178.1 | + | 19888 | 0.77 | 0.304781 |
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Target: 5'- aUGGGCGCccuaugGAUGUGCCggg-CUGGCGg -3' miRNA: 3'- aAUCCGUG------UUACACGGauuaGAUCGC- -5' |
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| 23123 | 5' | -48.8 | NC_005178.1 | + | 18735 | 0.78 | 0.265244 |
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Target: 5'- aUUAGGCACAuUGUGCCUAAUac-GCa -3' miRNA: 3'- -AAUCCGUGUuACACGGAUUAgauCGc -5' |
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| 23123 | 5' | -48.8 | NC_005178.1 | + | 18821 | 1.07 | 0.002929 |
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Target: 5'- aUUAGGCACAAUGUGCCUAAUCUAGCGu -3' miRNA: 3'- -AAUCCGUGUUACACGGAUUAGAUCGC- -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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