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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 | |||||||
| 24530 | 5' | -52.6 | NC_005264.1 | + | 144901 | 0.66 | 0.967419 |
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Target: 5'- gGAACuGUCGCGAGCcugGUCuuUCUAAGc- -3' miRNA: 3'- -UUUG-CAGCGCUCG---CAGcgAGAUUCau -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 150799 | 0.69 | 0.891923 |
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Target: 5'- gGAugGuUCGCGGGCGcuUCGC-CUAAGg- -3' miRNA: 3'- -UUugC-AGCGCUCGC--AGCGaGAUUCau -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 31773 | 0.69 | 0.891923 |
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Target: 5'- gGAugGuUCGCGGGCGcuUCGC-CUAAGg- -3' miRNA: 3'- -UUugC-AGCGCUCGC--AGCGaGAUUCau -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 15763 | 0.69 | 0.884891 |
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Target: 5'- -uGCG-CGCGAGCGUgGCUCcGGGc- -3' miRNA: 3'- uuUGCaGCGCUCGCAgCGAGaUUCau -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 5045 | 0.71 | 0.82931 |
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Target: 5'- -cGCGUCGUGGGCGcCGCcuagCUGGGa- -3' miRNA: 3'- uuUGCAGCGCUCGCaGCGa---GAUUCau -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 76075 | 0.72 | 0.764426 |
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Target: 5'- cGACGcCGCGAGCGUCgacgGCUCUAcGGg- -3' miRNA: 3'- uUUGCaGCGCUCGCAG----CGAGAU-UCau -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 127872 | 1.04 | 0.011175 |
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Target: 5'- cAAACGUCGCGAGCGUCGCUCUAAGUAc -3' miRNA: 3'- -UUUGCAGCGCUCGCAGCGAGAUUCAU- -5' |
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| 24530 | 5' | -52.6 | NC_005264.1 | + | 8846 | 1.04 | 0.011175 |
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Target: 5'- cAAACGUCGCGAGCGUCGCUCUAAGUAc -3' miRNA: 3'- -UUUGCAGCGCUCGCAGCGAGAUUCAU- -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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