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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 23815 | 5' | -54.5 | NC_005261.1 | + | 15747 | 0.68 | 0.897703 |
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Target: 5'- gCGCGCAGGCCGACcgC-CUCG---CCg -3' miRNA: 3'- gGUGCGUCUGGCUGa-GaGAGCucaGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 13449 | 0.68 | 0.897703 |
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Target: 5'- gCAgGCAGGCCGGCgC-CUCGGGg-- -3' miRNA: 3'- gGUgCGUCUGGCUGaGaGAGCUCagg -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 95709 | 0.68 | 0.891122 |
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Target: 5'- gCGCGCGGGCUcGCg--CUCGGGcCCg -3' miRNA: 3'- gGUGCGUCUGGcUGagaGAGCUCaGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 12655 | 0.68 | 0.891122 |
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Target: 5'- gCCGCGCcGGCgCGACaucgucgucCUCgagCGGGUCCc -3' miRNA: 3'- -GGUGCGuCUG-GCUGa--------GAGa--GCUCAGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 74946 | 0.68 | 0.884315 |
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Target: 5'- gCgGCGCGGGCgCG-CUCggcgcgCUCGAGgCCg -3' miRNA: 3'- -GgUGCGUCUG-GCuGAGa-----GAGCUCaGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 95908 | 0.68 | 0.877287 |
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Target: 5'- cCCGCGCGG-CgCG-CUCaCUCGcGGUCCg -3' miRNA: 3'- -GGUGCGUCuG-GCuGAGaGAGC-UCAGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 50633 | 0.69 | 0.869305 |
|
Target: 5'- uCCACGCGGgcggcgggguggcGCCGGCgaaCgcgCUCGcccaAGUCCg -3' miRNA: 3'- -GGUGCGUC-------------UGGCUGa--Ga--GAGC----UCAGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 39294 | 0.69 | 0.868567 |
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Target: 5'- gCCACGguGGCgGACUacacgcgguucCUCGcGUCCa -3' miRNA: 3'- -GGUGCguCUGgCUGAga---------GAGCuCAGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 95306 | 0.69 | 0.862584 |
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Target: 5'- -gGCGCAGACgGACUgCgaccccuacgUC-CGGGUCCa -3' miRNA: 3'- ggUGCGUCUGgCUGA-G----------AGaGCUCAGG- -5' |
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| 23815 | 5' | -54.5 | NC_005261.1 | + | 73825 | 0.78 | 0.408133 |
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Target: 5'- cCCGCGCcuAGcCCGGCUCUUgggCGAGUCg -3' miRNA: 3'- -GGUGCG--UCuGGCUGAGAGa--GCUCAGg -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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