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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12494 | 3' | -57 | NC_003324.1 | + | 4613 | 0.68 | 0.478185 |
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Target: 5'- cGGCUCaUCUUGu-CGGUGGCGUCGa- -3' miRNA: 3'- -UCGGGcGGAACuuGUCACCGCAGCac -5' |
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| 12494 | 3' | -57 | NC_003324.1 | + | 15749 | 0.67 | 0.547689 |
|
Target: 5'- uGGCCCGCCUUGAucgcgucaucgagcGCGccggGGcCGUCGc- -3' miRNA: 3'- -UCGGGCGGAACU--------------UGUca--CC-GCAGCac -5' |
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| 12494 | 3' | -57 | NC_003324.1 | + | 30338 | 0.71 | 0.341744 |
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Target: 5'- uGGCCCGCaucaucgccgauggUGucgGCGGUGGCGUCGc- -3' miRNA: 3'- -UCGGGCGga------------ACu--UGUCACCGCAGCac -5' |
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| 12494 | 3' | -57 | NC_003324.1 | + | 32743 | 0.7 | 0.401357 |
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Target: 5'- aAGCCCGCCgaccgGuuUGGUGGCGggcuUUGUGa -3' miRNA: 3'- -UCGGGCGGaa---CuuGUCACCGC----AGCAC- -5' |
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| 12494 | 3' | -57 | NC_003324.1 | + | 55414 | 1.08 | 0.000848 |
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Target: 5'- aAGCCCGCCUUGAACAGUGGCGUCGUGu -3' miRNA: 3'- -UCGGGCGGAACUUGUCACCGCAGCAC- -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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