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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 | |||||||
| 6204 | 3' | -54.7 | NC_001844.1 | + | 60132 | 0.67 | 0.910983 |
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Target: 5'- ---uGCGGCCgaaUAGCG-CCAGCUCc- -3' miRNA: 3'- gaggUGCCGGa--AUUGCaGGUCGAGac -5' |
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| 6204 | 3' | -54.7 | NC_001844.1 | + | 50543 | 0.67 | 0.904778 |
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Target: 5'- uUUCACGGCCUgAugGUUUAGCg--- -3' miRNA: 3'- gAGGUGCCGGAaUugCAGGUCGagac -5' |
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| 6204 | 3' | -54.7 | NC_001844.1 | + | 122586 | 0.67 | 0.898333 |
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Target: 5'- -cUCACGGUCgccGGCGUCguGCUCg- -3' miRNA: 3'- gaGGUGCCGGaa-UUGCAGguCGAGac -5' |
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| 6204 | 3' | -54.7 | NC_001844.1 | + | 117740 | 0.67 | 0.891649 |
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Target: 5'- -aCUACGGCgCU--AC-UCCGGCUCUGc -3' miRNA: 3'- gaGGUGCCG-GAauUGcAGGUCGAGAC- -5' |
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| 6204 | 3' | -54.7 | NC_001844.1 | + | 115530 | 0.69 | 0.812781 |
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Target: 5'- cCUCCGCGGCgg-AGCGUCC-GCUg-- -3' miRNA: 3'- -GAGGUGCCGgaaUUGCAGGuCGAgac -5' |
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| 6204 | 3' | -54.7 | NC_001844.1 | + | 39692 | 0.7 | 0.785477 |
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Target: 5'- -gCCACGcucaauGCCUUGGCGUcuaacccagCCAGCUCUc -3' miRNA: 3'- gaGGUGC------CGGAAUUGCA---------GGUCGAGAc -5' |
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| 6204 | 3' | -54.7 | NC_001844.1 | + | 40883 | 1.1 | 0.003074 |
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Target: 5'- aCUCCACGGCCUUAACGUCCAGCUCUGg -3' miRNA: 3'- -GAGGUGCCGGAAUUGCAGGUCGAGAC- -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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