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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 | |||||||
| 27382 | 3' | -55.5 | NC_005857.1 | + | 17165 | 0.66 | 0.720916 |
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Target: 5'- aCGCGGGAAUuUGuCCGGAucGUgGGCCa -3' miRNA: 3'- gGCGCUCUUGuACuGGCUU--CG-CCGGa -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 46907 | 0.66 | 0.69952 |
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Target: 5'- cCCG-GAGAACGUcGCCGAguAGaCGGCg- -3' miRNA: 3'- -GGCgCUCUUGUAcUGGCU--UC-GCCGga -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 48300 | 0.66 | 0.695206 |
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Target: 5'- aCCGCGAG-GCGUucaauaaagaagccGACCGAuugacccGGCacGGCCa -3' miRNA: 3'- -GGCGCUCuUGUA--------------CUGGCU-------UCG--CCGGa -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 44962 | 0.66 | 0.674598 |
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Target: 5'- aCGUGAGcacaguuuuaacaaGACAgaccUGACCG-GGCGGCUg -3' miRNA: 3'- gGCGCUC--------------UUGU----ACUGGCuUCGCCGGa -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 35801 | 0.67 | 0.666965 |
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Target: 5'- gCCGC-AGAACAUG-CCGAAaUGGCg- -3' miRNA: 3'- -GGCGcUCUUGUACuGGCUUcGCCGga -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 14241 | 0.67 | 0.623152 |
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Target: 5'- aCCGCcauacGGCAcgcgcUGGCUGAGGUGGCCa -3' miRNA: 3'- -GGCGcuc--UUGU-----ACUGGCUUCGCCGGa -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 31026 | 0.67 | 0.623152 |
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Target: 5'- -aGCGGGcGACGcugaagaGGCCGAGGUGGCUg -3' miRNA: 3'- ggCGCUC-UUGUa------CUGGCUUCGCCGGa -5' |
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| 27382 | 3' | -55.5 | NC_005857.1 | + | 45122 | 1.09 | 0.001027 |
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Target: 5'- uCCGCGAGAACAUGACCGAAGCGGCCUu -3' miRNA: 3'- -GGCGCUCUUGUACUGGCUUCGCCGGA- -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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