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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 | |||||||
| 22352 | 5' | -52.6 | NC_005045.1 | + | 14854 | 0.66 | 0.759746 |
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Target: 5'- cGGAUGCUggcgcgaCUGCCGccccugcUGUAcCGGCUGu -3' miRNA: 3'- -CCUACGGa------GACGGC-------ACAUaGUCGAUg -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 23078 | 0.67 | 0.728067 |
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Target: 5'- ---cGCCUCUGCC-UGUagcucGUCGGCg-- -3' miRNA: 3'- ccuaCGGAGACGGcACA-----UAGUCGaug -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 1044 | 0.67 | 0.693233 |
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Target: 5'- cGAUGCCUUgGuaGUGUGUCAacccugucuccagGCUGCc -3' miRNA: 3'- cCUACGGAGaCggCACAUAGU-------------CGAUG- -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 20289 | 0.67 | 0.682986 |
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Target: 5'- -uAUGCCUCUGaCGUGgAUCGGaUGCa -3' miRNA: 3'- ccUACGGAGACgGCACaUAGUCgAUG- -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 40390 | 0.68 | 0.66467 |
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Target: 5'- aGGGUGCCUUUGCCcgccucgguggcgGUAUCgAGCa-- -3' miRNA: 3'- -CCUACGGAGACGGca-----------CAUAG-UCGaug -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 34474 | 0.68 | 0.648571 |
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Target: 5'- gGGAU-UCUCcGgCGUGUAUCAGCuUGCu -3' miRNA: 3'- -CCUAcGGAGaCgGCACAUAGUCG-AUG- -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 5227 | 0.71 | 0.490545 |
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Target: 5'- uGGAagcUGCC-CUgGCCGUGUGcCAGCaGCg -3' miRNA: 3'- -CCU---ACGGaGA-CGGCACAUaGUCGaUG- -5' |
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| 22352 | 5' | -52.6 | NC_005045.1 | + | 27783 | 1.13 | 0.000604 |
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Target: 5'- aGGAUGCCUCUGCCGUGUAUCAGCUACa -3' miRNA: 3'- -CCUACGGAGACGGCACAUAGUCGAUG- -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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