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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 | |||||||
| 18895 | 3' | -55 | NC_004683.1 | + | 50342 | 0.65 | 0.73889 |
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Target: 5'- ---cUGCUGUUCACCCgCgCCGAgCUGa -3' miRNA: 3'- cacaGCGACAAGUGGGaG-GGCUaGAU- -5' |
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| 18895 | 3' | -55 | NC_004683.1 | + | 37168 | 0.66 | 0.706662 |
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Target: 5'- aUGUCGCUGaUCGCCgaauugauauUUCCCGAg--- -3' miRNA: 3'- cACAGCGACaAGUGG----------GAGGGCUagau -5' |
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| 18895 | 3' | -55 | NC_004683.1 | + | 18505 | 0.67 | 0.640505 |
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Target: 5'- -aGUCGCUGcacaACCUUCCCGAc--- -3' miRNA: 3'- caCAGCGACaag-UGGGAGGGCUagau -5' |
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| 18895 | 3' | -55 | NC_004683.1 | + | 15406 | 0.68 | 0.596094 |
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Target: 5'- cGUGaUGCUGUuuUCGCCCaUCagaCGAUCUGg -3' miRNA: 3'- -CACaGCGACA--AGUGGG-AGg--GCUAGAU- -5' |
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| 18895 | 3' | -55 | NC_004683.1 | + | 17373 | 0.75 | 0.256478 |
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Target: 5'- aUGUCGCUGaUCuACCCggugCCCGAUCc- -3' miRNA: 3'- cACAGCGACaAG-UGGGa---GGGCUAGau -5' |
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| 18895 | 3' | -55 | NC_004683.1 | + | 22459 | 1.06 | 0.001589 |
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Target: 5'- gGUGUCGCUGUUCACCCUCCCGAUCUAc -3' miRNA: 3'- -CACAGCGACAAGUGGGAGGGCUAGAU- -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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