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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 | |||||||
| 10540 | 3' | -53.4 | NC_002687.1 | + | 157554 | 0.66 | 0.997581 |
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Target: 5'- ---aCUGGCUGAAC--CAGCUgGGGu -3' miRNA: 3'- gaaaGAUCGACUUGcaGUCGGgCCCc -5' |
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| 10540 | 3' | -53.4 | NC_002687.1 | + | 37721 | 0.67 | 0.993224 |
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Target: 5'- ----gUGGCUGGuGCGUCGGCaaacaucccCUGGGGa -3' miRNA: 3'- gaaagAUCGACU-UGCAGUCG---------GGCCCC- -5' |
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| 10540 | 3' | -53.4 | NC_002687.1 | + | 62285 | 0.69 | 0.980244 |
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Target: 5'- aCUUUCUAGa-GAuUGUagaAGUCCGGGGa -3' miRNA: 3'- -GAAAGAUCgaCUuGCAg--UCGGGCCCC- -5' |
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| 10540 | 3' | -53.4 | NC_002687.1 | + | 231655 | 0.71 | 0.946207 |
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Target: 5'- --aUCggaAGCgaugGAGUGUgGGCCCGGGGg -3' miRNA: 3'- gaaAGa--UCGa---CUUGCAgUCGGGCCCC- -5' |
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| 10540 | 3' | -53.4 | NC_002687.1 | + | 19242 | 1.11 | 0.00869 |
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Target: 5'- gCUUUCUAGCUGAACGUCAGCCCGGGGa -3' miRNA: 3'- -GAAAGAUCGACUUGCAGUCGGGCCCC- -5' |
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| 10540 | 3' | -53.4 | NC_002687.1 | + | 195077 | 1.11 | 0.00869 |
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Target: 5'- gCUUUCUAGCUGAACGUCAGCCCGGGGa -3' miRNA: 3'- -GAAAGAUCGACUUGCAGUCGGGCCCC- -5' |
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| 10540 | 3' | -53.4 | NC_002687.1 | + | 220668 | 1.11 | 0.00869 |
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Target: 5'- gCUUUCUAGCUGAACGUCAGCCCGGGGa -3' miRNA: 3'- -GAAAGAUCGACUUGCAGUCGGGCCCC- -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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