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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 | |||||||
| 12052 | 5' | -43.4 | NC_003298.1 | + | 28165 | 0.66 | 0.998872 |
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Target: 5'- aCGCUugGCAGucaGUCGGucagcgucaaGAAUAA-CCUg -3' miRNA: 3'- aGCGAugCGUU---UAGUC----------UUUAUUaGGA- -5' |
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| 12052 | 5' | -43.4 | NC_003298.1 | + | 28952 | 0.67 | 0.997343 |
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Target: 5'- cCGCUAaugcccuuggucUGCGAGUUAcAGAUGGUCCa -3' miRNA: 3'- aGCGAU------------GCGUUUAGUcUUUAUUAGGa -5' |
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| 12052 | 5' | -43.4 | NC_003298.1 | + | 12161 | 0.69 | 0.987452 |
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Target: 5'- cCGCUaccACGUAGGUCAGuAAUAgacacagcgcGUCCUu -3' miRNA: 3'- aGCGA---UGCGUUUAGUCuUUAU----------UAGGA- -5' |
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| 12052 | 5' | -43.4 | NC_003298.1 | + | 33484 | 0.7 | 0.964671 |
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Target: 5'- cUGCUGCGCAucAAUCuGAGGUAAacgcugagaacUCCg -3' miRNA: 3'- aGCGAUGCGU--UUAGuCUUUAUU-----------AGGa -5' |
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| 12052 | 5' | -43.4 | NC_003298.1 | + | 35388 | 1.11 | 0.008515 |
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Target: 5'- gUCGCUACGCAAAUCAGAAAUAAUCCUa -3' miRNA: 3'- -AGCGAUGCGUUUAGUCUUUAUUAGGA- -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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