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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 | |||||||
| 12263 | 3' | -50.2 | NC_003309.1 | + | 27495 | 0.66 | 0.921292 |
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Target: 5'- aGCGCAUCcuugaagUCGAGCG-CGGCGAa- -3' miRNA: 3'- -CGUGUAGaua----GGCUCGCaGCUGUUca -5' |
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| 12263 | 3' | -50.2 | NC_003309.1 | + | 6307 | 0.67 | 0.898513 |
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Target: 5'- uCACAUCcgccucgugagCCGAggcaauaucgGCGUCGACGAGUu -3' miRNA: 3'- cGUGUAGaua--------GGCU----------CGCAGCUGUUCA- -5' |
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| 12263 | 3' | -50.2 | NC_003309.1 | + | 15428 | 0.69 | 0.83043 |
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Target: 5'- cGCGCGagUGUCCGGcgccggaacaccuucGCGcCGACGAGa -3' miRNA: 3'- -CGUGUagAUAGGCU---------------CGCaGCUGUUCa -5' |
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| 12263 | 3' | -50.2 | NC_003309.1 | + | 53316 | 0.73 | 0.610569 |
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Target: 5'- gGCGCAUCcg-CCGGGCGggcaaCGACGGGc -3' miRNA: 3'- -CGUGUAGauaGGCUCGCa----GCUGUUCa -5' |
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| 12263 | 3' | -50.2 | NC_003309.1 | + | 29940 | 0.81 | 0.243492 |
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Target: 5'- cGCGCGUucCUGUCCGGuuucuuccagugguGCGUCGACAAGg -3' miRNA: 3'- -CGUGUA--GAUAGGCU--------------CGCAGCUGUUCa -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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