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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 22469 | 3' | -47.8 | NC_005066.1 | + | 73139 | 0.69 | 0.994425 |
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Target: 5'- aUCGCggUUaCUGCUCGAUUUCAAGCAUUg -3' miRNA: 3'- -GGUGa-AA-GGCGGGUUGAAGUUUGUGA- -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 43844 | 0.68 | 0.998582 |
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Target: 5'- ------aCCGCCCAgGCUUCAuuuGCACg -3' miRNA: 3'- ggugaaaGGCGGGU-UGAAGUu--UGUGa -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 126458 | 0.67 | 0.999223 |
|
Target: 5'- gCGCUUUCUGCUuUAGCUUCGAuaauuACAUa -3' miRNA: 3'- gGUGAAAGGCGG-GUUGAAGUU-----UGUGa -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 132273 | 0.67 | 0.999223 |
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Target: 5'- aCCAUUUUCaCGCaaAACUUUAAuCACUu -3' miRNA: 3'- -GGUGAAAG-GCGggUUGAAGUUuGUGA- -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 115851 | 0.67 | 0.999372 |
|
Target: 5'- uUC-CUUUcCCGCCUAGCUUaGAAUGCUg -3' miRNA: 3'- -GGuGAAA-GGCGGGUUGAAgUUUGUGA- -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 101462 | 0.66 | 0.999749 |
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Target: 5'- aCCGCgcUCC-CUCGACUUCAAA-ACUa -3' miRNA: 3'- -GGUGaaAGGcGGGUUGAAGUUUgUGA- -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 146264 | 0.68 | 0.997539 |
|
Target: 5'- aUCACUagCCGCauugaaCGACaaUUCAGACACUu -3' miRNA: 3'- -GGUGAaaGGCGg-----GUUG--AAGUUUGUGA- -5' |
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| 22469 | 3' | -47.8 | NC_005066.1 | + | 73370 | 1.1 | 0.017093 |
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Target: 5'- uCCACUUUCCGCCCAACUUCAAACACUc -3' miRNA: 3'- -GGUGAAAGGCGGGUUGAAGUUUGUGA- -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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