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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 | |||||||
| 13060 | 3' | -55.1 | NC_003390.1 | + | 19888 | 0.66 | 0.72316 |
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Target: 5'- gGGAGAUGgACUUC-CACGAUGCaaugGCUa -3' miRNA: 3'- -CCUCUACaUGGGGaGUGCUGCGg---UGA- -5' |
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| 13060 | 3' | -55.1 | NC_003390.1 | + | 29903 | 0.66 | 0.72316 |
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Target: 5'- gGGAGAUGgACUUC-CACGAUGCaaugGCUa -3' miRNA: 3'- -CCUCUACaUGGGGaGUGCUGCGg---UGA- -5' |
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| 13060 | 3' | -55.1 | NC_003390.1 | + | 45371 | 0.66 | 0.701605 |
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Target: 5'- uGGAGcUGgACCCCUCAgguaGugGUgGCUu -3' miRNA: 3'- -CCUCuACaUGGGGAGUg---CugCGgUGA- -5' |
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| 13060 | 3' | -55.1 | NC_003390.1 | + | 20897 | 0.67 | 0.656661 |
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Target: 5'- -uAGGUGUACCgauuggcccuccaCCUgGgGAUGCCACUa -3' miRNA: 3'- ccUCUACAUGG-------------GGAgUgCUGCGGUGA- -5' |
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| 13060 | 3' | -55.1 | NC_003390.1 | + | 39879 | 0.69 | 0.505281 |
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Target: 5'- ----cUGUGCCCgCUCACGugGCUggACUg -3' miRNA: 3'- ccucuACAUGGG-GAGUGCugCGG--UGA- -5' |
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| 13060 | 3' | -55.1 | NC_003390.1 | + | 9501 | 1.1 | 0.00086 |
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Target: 5'- cGGAGAUGUACCCCUCACGACGCCACUc -3' miRNA: 3'- -CCUCUACAUGGGGAGUGCUGCGGUGA- -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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