miRNA: 3'- -UAGAG-AGA----AGGGAGGGUC-CCAGGGGa -5'
miRNA: 3'- uAGAGAGAAGGGAGGguc--CCAGGGGa -5'
miRNA: 3'- uAGAGAGAAGGGAGGguc--CCAGGGGa -5'
miRNA: 3'- -UAGAGAGAAGGGAGGGUCCCAGGGGA- -5'
miRNA: 3'- -UAGAGAGAAGGGAGGGUCCCAGGGGA- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 10429 | 3' | -60.3 | NC_002687.1 | + | 319794 | 0.7 | 0.677185 |
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Target: 5'- gAUCUCgUCUugguUUCCUCUCGGaGGUCCCUg -3' miRNA: 3'- -UAGAG-AGA----AGGGAGGGUC-CCAGGGGa -5' |
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| 10429 | 3' | -60.3 | NC_002687.1 | + | 246748 | 0.71 | 0.591398 |
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Target: 5'- uUCUCUCUUCCUUCCagcauGGUCCUCc -3' miRNA: 3'- uAGAGAGAAGGGAGGguc--CCAGGGGa -5' |
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| 10429 | 3' | -60.3 | NC_002687.1 | + | 319168 | 0.71 | 0.591398 |
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Target: 5'- uUCUCUCUUCCUUCCaacauGGUCCUCc -3' miRNA: 3'- uAGAGAGAAGGGAGGguc--CCAGGGGa -5' |
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| 10429 | 3' | -60.3 | NC_002687.1 | + | 245349 | 1.05 | 0.004467 |
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Target: 5'- cGUCUCUCUUCCCUCCCAGGGUCCCCUc -3' miRNA: 3'- -UAGAGAGAAGGGAGGGUCCCAGGGGA- -5' |
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| 10429 | 3' | -60.3 | NC_002687.1 | + | 320567 | 1.06 | 0.004133 |
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Target: 5'- cAUCUCUCUUCCCUCCCAGGGUCCCCUg -3' miRNA: 3'- -UAGAGAGAAGGGAGGGUCCCAGGGGA- -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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