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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 | |||||||
| 22559 | 3' | -51 | NC_005091.1 | + | 22672 | 0.66 | 0.936845 |
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Target: 5'- aCGGUAUcuccgaccUGCGcagaGGCCGUCAgCGGGu- -3' miRNA: 3'- -GCCAUAua------ACGC----UCGGCAGU-GCCUuc -5' |
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| 22559 | 3' | -51 | NC_005091.1 | + | 42209 | 0.66 | 0.92561 |
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Target: 5'- uCGGUGUGgggcaacccguUUGUGAucgGCCGagACGGAAc -3' miRNA: 3'- -GCCAUAU-----------AACGCU---CGGCagUGCCUUc -5' |
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| 22559 | 3' | -51 | NC_005091.1 | + | 42662 | 0.71 | 0.71295 |
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Target: 5'- --------cGCGucGCCGUCGCGGAAGa -3' miRNA: 3'- gccauauaaCGCu-CGGCAGUGCCUUC- -5' |
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| 22559 | 3' | -51 | NC_005091.1 | + | 2893 | 0.74 | 0.534895 |
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Target: 5'- uGGUGUGcgaauauguccUUGCG-GCCGUC-CGGggGu -3' miRNA: 3'- gCCAUAU-----------AACGCuCGGCAGuGCCuuC- -5' |
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| 22559 | 3' | -51 | NC_005091.1 | + | 5212 | 1.1 | 0.002602 |
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Target: 5'- cCGGUAUAUUGCGAGCCGUCACGGAAGa -3' miRNA: 3'- -GCCAUAUAACGCUCGGCAGUGCCUUC- -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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