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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 | |||||||
| 29310 | 5' | -60 | NC_006150.1 | + | 38563 | 0.66 | 0.797106 |
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Target: 5'- -uGGUGGGUCAGg--AGCGCCUCa-- -3' miRNA: 3'- acCCGCCCGGUUggaUCGCGGAGaaa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 65434 | 0.66 | 0.779371 |
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Target: 5'- cGGGuCGGGCUAGCUcGGCgGCCg---- -3' miRNA: 3'- aCCC-GCCCGGUUGGaUCG-CGGagaaa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 116718 | 0.67 | 0.742478 |
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Target: 5'- uUGGGcCGGGuCCAGCUgAGCGCgUaCUUc -3' miRNA: 3'- -ACCC-GCCC-GGUUGGaUCGCGgA-GAAa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 37844 | 0.68 | 0.654977 |
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Target: 5'- aGGGgGGGCCAagcgagaggcaGCC-AGCGCCcCg-- -3' miRNA: 3'- aCCCgCCCGGU-----------UGGaUCGCGGaGaaa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 129886 | 0.69 | 0.584641 |
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Target: 5'- cGaGGCGGGCCAcguagggACCUcGCGCCcCa-- -3' miRNA: 3'- aC-CCGCCCGGU-------UGGAuCGCGGaGaaa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 143550 | 0.72 | 0.41844 |
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Target: 5'- uUGcGGCGGcgcGCCAGCagcGGCGCCUCUUc -3' miRNA: 3'- -AC-CCGCC---CGGUUGga-UCGCGGAGAAa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 182044 | 0.76 | 0.277199 |
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Target: 5'- cUGGGCGGGCCGguuACCcGGCcGUCUCUc- -3' miRNA: 3'- -ACCCGCCCGGU---UGGaUCG-CGGAGAaa -5' |
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| 29310 | 5' | -60 | NC_006150.1 | + | 89675 | 1.05 | 0.002963 |
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Target: 5'- gUGGGCGGGCCAACCUAGCGCCUCUUUc -3' miRNA: 3'- -ACCCGCCCGGUUGGAUCGCGGAGAAA- -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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