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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 | |||||||
| 22061 | 3' | -46.4 | NC_004927.1 | + | 12404 | 0.66 | 0.998623 |
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Target: 5'- aUCGAgg-UAAUGUCcAAUUGGCACa -3' miRNA: 3'- gAGCUaaaGUUAUAGcUUGGCCGUGc -5' |
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| 22061 | 3' | -46.4 | NC_004927.1 | + | 60535 | 0.66 | 0.998446 |
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Target: 5'- gUCGAUggaUUCGAUgaugcggcuggugcuGUUGAcGCUGGCACGc -3' miRNA: 3'- gAGCUA---AAGUUA---------------UAGCU-UGGCCGUGC- -5' |
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| 22061 | 3' | -46.4 | NC_004927.1 | + | 28680 | 0.67 | 0.997532 |
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Target: 5'- cCUCGGcUUCuAUGUC-AACCGGCuuCGa -3' miRNA: 3'- -GAGCUaAAGuUAUAGcUUGGCCGu-GC- -5' |
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| 22061 | 3' | -46.4 | NC_004927.1 | + | 26522 | 0.67 | 0.997038 |
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Target: 5'- aCUCGGUUUCAAgcgCGAACUuguGGaGCGc -3' miRNA: 3'- -GAGCUAAAGUUauaGCUUGG---CCgUGC- -5' |
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| 22061 | 3' | -46.4 | NC_004927.1 | + | 66069 | 0.69 | 0.986082 |
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Target: 5'- aCUCGAUgugUUAgaacAUAUcCGAACCGGaaCACGg -3' miRNA: 3'- -GAGCUAa--AGU----UAUA-GCUUGGCC--GUGC- -5' |
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| 22061 | 3' | -46.4 | NC_004927.1 | + | 32416 | 0.69 | 0.983532 |
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Target: 5'- gUCGuccgucUCAAUGUCGAACgucagaacacggggCGGCGCGu -3' miRNA: 3'- gAGCuaa---AGUUAUAGCUUG--------------GCCGUGC- -5' |
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| 22061 | 3' | -46.4 | NC_004927.1 | + | 33871 | 1.11 | 0.009979 |
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Target: 5'- uCUCGAUUUCAAUAUCGAACCGGCACGg -3' miRNA: 3'- -GAGCUAAAGUUAUAGCUUGGCCGUGC- -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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