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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 | |||||||
| 32999 | 5' | -52.2 | NC_007456.1 | + | 6371 | 0.66 | 0.776468 |
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Target: 5'- -cCAACgC-CAGuCAGCUugGGUcCACGCa -3' miRNA: 3'- caGUUG-GcGUC-GUUGAugCCA-GUGUG- -5' |
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| 32999 | 5' | -52.2 | NC_007456.1 | + | 9156 | 0.67 | 0.721747 |
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Target: 5'- cGUCAACCGaUGGUGACUucgGGUCugAUg -3' miRNA: 3'- -CAGUUGGC-GUCGUUGAug-CCAGugUG- -5' |
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| 32999 | 5' | -52.2 | NC_007456.1 | + | 26049 | 0.67 | 0.721747 |
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Target: 5'- --gAGCUGCGGUAGCUGagucCGGUCugGa -3' miRNA: 3'- cagUUGGCGUCGUUGAU----GCCAGugUg -5' |
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| 32999 | 5' | -52.2 | NC_007456.1 | + | 30836 | 0.73 | 0.381381 |
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Target: 5'- aUCGACCGCAGCAGCaaguccuucUGgGGUCA-ACg -3' miRNA: 3'- cAGUUGGCGUCGUUG---------AUgCCAGUgUG- -5' |
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| 32999 | 5' | -52.2 | NC_007456.1 | + | 4757 | 0.73 | 0.372069 |
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Target: 5'- uUCAGCCGcCAGCAGCUugGca-GCACc -3' miRNA: 3'- cAGUUGGC-GUCGUUGAugCcagUGUG- -5' |
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| 32999 | 5' | -52.2 | NC_007456.1 | + | 4651 | 0.74 | 0.327877 |
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Target: 5'- --uGACCGUAGUuGCUGCGGUUgACGCg -3' miRNA: 3'- cagUUGGCGUCGuUGAUGCCAG-UGUG- -5' |
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| 32999 | 5' | -52.2 | NC_007456.1 | + | 4713 | 1.1 | 0.001011 |
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Target: 5'- cGUCAACCGCAGCAACUACGGUCACACu -3' miRNA: 3'- -CAGUUGGCGUCGUUGAUGCCAGUGUG- -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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