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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 | |||||||
| 13022 | 3' | -55 | NC_003390.1 | + | 2664 | 0.66 | 0.690512 |
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Target: 5'- aUCUCAGgaugcACUUCUGUGAGCGUG--GCa -3' miRNA: 3'- -GGAGUC-----UGGGGGCACUCGCAUuaCGa -5' |
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| 13022 | 3' | -55 | NC_003390.1 | + | 38727 | 0.66 | 0.668485 |
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Target: 5'- cCCaUUGGAUCCCCGUGAGaGgg--GCUa -3' miRNA: 3'- -GG-AGUCUGGGGGCACUCgCauuaCGA- -5' |
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| 13022 | 3' | -55 | NC_003390.1 | + | 33445 | 0.67 | 0.657413 |
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Target: 5'- gCCUCA-ACCCCCaaUGAGagguuguugaGUGAUGCUg -3' miRNA: 3'- -GGAGUcUGGGGGc-ACUCg---------CAUUACGA- -5' |
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| 13022 | 3' | -55 | NC_003390.1 | + | 38457 | 0.68 | 0.586432 |
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Target: 5'- gCCUCGgcuucguuaccgguGACCUUCGUGGGUGUugacgguguugacGGUGCUg -3' miRNA: 3'- -GGAGU--------------CUGGGGGCACUCGCA-------------UUACGA- -5' |
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| 13022 | 3' | -55 | NC_003390.1 | + | 7578 | 0.69 | 0.525519 |
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Target: 5'- -aUCAGAUCgCCCaaGAGCGUGcUGCUg -3' miRNA: 3'- ggAGUCUGG-GGGcaCUCGCAUuACGA- -5' |
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| 13022 | 3' | -55 | NC_003390.1 | + | 10303 | 1.09 | 0.000912 |
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Target: 5'- cCCUCAGACCCCCGUGAGCGUAAUGCUc -3' miRNA: 3'- -GGAGUCUGGGGGCACUCGCAUUACGA- -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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