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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 | |||||||
| 4359 | 5' | -61 | NC_001720.1 | + | 17147 | 1.08 | 0.000244 |
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Target: 5'- aCUACGCCGCUUGGAGGCCCGCCGACUa -3' miRNA: 3'- -GAUGCGGCGAACCUCCGGGCGGCUGA- -5' |
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| 4359 | 5' | -61 | NC_001720.1 | + | 36342 | 0.7 | 0.188024 |
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Target: 5'- -aGCGCCGCUcaGAGGUcauCCGCCGAg- -3' miRNA: 3'- gaUGCGGCGAacCUCCG---GGCGGCUga -5' |
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| 4359 | 5' | -61 | NC_001720.1 | + | 17784 | 0.67 | 0.297621 |
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Target: 5'- uUugGCCggagagacGC-UGGGGGCCCuGaCCGACa -3' miRNA: 3'- gAugCGG--------CGaACCUCCGGG-C-GGCUGa -5' |
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| 4359 | 5' | -61 | NC_001720.1 | + | 11038 | 0.66 | 0.347076 |
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Target: 5'- --cCGCCGCgugacgcgGGgcaggcggucuacgaAGGCCCGCaCGGCa -3' miRNA: 3'- gauGCGGCGaa------CC---------------UCCGGGCG-GCUGa -5' |
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| 4359 | 5' | -61 | NC_001720.1 | + | 23927 | 0.66 | 0.352003 |
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Target: 5'- -cGCGCUaagGUcacagagGGAGGCCUGCCGuACUu -3' miRNA: 3'- gaUGCGG---CGaa-----CCUCCGGGCGGC-UGA- -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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