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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 | |||||||
| 21059 | 3' | -47.5 | NC_004745.1 | + | 19727 | 0.66 | 0.903978 |
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Target: 5'- ----aUGCUGACACCGGCAu------ -3' miRNA: 3'- uugaaACGGUUGUGGCCGUuuacaau -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 1249 | 0.67 | 0.861502 |
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Target: 5'- cAGCggggUGCUGAUACCGGCGgugAGUGg-- -3' miRNA: 3'- -UUGaa--ACGGUUGUGGCCGU---UUACaau -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 27776 | 0.67 | 0.861502 |
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Target: 5'- -----cGCuCAAUACCGGCAAugGUGUUc -3' miRNA: 3'- uugaaaCG-GUUGUGGCCGUU--UACAAu -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 26851 | 0.68 | 0.821926 |
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Target: 5'- cAGCaUUUGCCGcagGCACCGGUAAGa---- -3' miRNA: 3'- -UUG-AAACGGU---UGUGGCCGUUUacaau -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 22305 | 0.7 | 0.719373 |
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Target: 5'- cACUUUGCCGuuACGCCGGUAu------ -3' miRNA: 3'- uUGAAACGGU--UGUGGCCGUuuacaau -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 8688 | 0.74 | 0.452018 |
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Target: 5'- -----cGCCAGCACCGGCAcAAUGa-- -3' miRNA: 3'- uugaaaCGGUUGUGGCCGU-UUACaau -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 10744 | 0.75 | 0.408466 |
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Target: 5'- -----cGCCGACACCGGCAguGAUGg-- -3' miRNA: 3'- uugaaaCGGUUGUGGCCGU--UUACaau -5' |
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| 21059 | 3' | -47.5 | NC_004745.1 | + | 3501 | 1.05 | 0.004056 |
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Target: 5'- gAACUUUGCCAACACCGGCAAAUGUUAu -3' miRNA: 3'- -UUGAAACGGUUGUGGCCGUUUACAAU- -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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