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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 | |||||||
| 8466 | 3' | -57.5 | NC_002167.1 | + | 8737 | 0.66 | 0.503957 |
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Target: 5'- cGUCAGAUGAUuUCaCGGagucccaGCGGgcGCUGa -3' miRNA: 3'- -CGGUCUACUGuAG-GCCg------CGCCa-CGAC- -5' |
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| 8466 | 3' | -57.5 | NC_002167.1 | + | 15071 | 0.66 | 0.502906 |
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Target: 5'- cGCCAGuggugGGCA-CUGGCGCacuaauugccgacGGUGCg- -3' miRNA: 3'- -CGGUCua---CUGUaGGCCGCG-------------CCACGac -5' |
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| 8466 | 3' | -57.5 | NC_002167.1 | + | 4206 | 0.68 | 0.404353 |
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Target: 5'- -aCAGAaacUGGCAUCCGGCGCugagaauccuGGUGa-- -3' miRNA: 3'- cgGUCU---ACUGUAGGCCGCG----------CCACgac -5' |
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| 8466 | 3' | -57.5 | NC_002167.1 | + | 31306 | 0.81 | 0.052198 |
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Target: 5'- cCCGGuucUGACGUCCGGCGCGGagUGUUGa -3' miRNA: 3'- cGGUCu--ACUGUAGGCCGCGCC--ACGAC- -5' |
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| 8466 | 3' | -57.5 | NC_002167.1 | + | 20811 | 1.1 | 0.000295 |
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Target: 5'- gGCCAGAUGACAUCCGGCGCGGUGCUGg -3' miRNA: 3'- -CGGUCUACUGUAGGCCGCGCCACGAC- -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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