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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 | |||||||
| 30564 | 5' | -59.9 | NC_006548.1 | + | 4878 | 0.66 | 0.319967 |
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Target: 5'- --aGCGUGcCUCCgggcUCGAUUUCGGCCg- -3' miRNA: 3'- ucgCGCAC-GAGG----AGCUGGAGUCGGaa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 33362 | 0.66 | 0.319967 |
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Target: 5'- cAGCGCcgcaUGCUCCUCGcgGCCggaGGUCUg -3' miRNA: 3'- -UCGCGc---ACGAGGAGC--UGGag-UCGGAa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 6469 | 0.67 | 0.274953 |
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Target: 5'- uGGCGCGUGCaCgaUGACCUCGauGCCc- -3' miRNA: 3'- -UCGCGCACGaGgaGCUGGAGU--CGGaa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 7016 | 0.68 | 0.261116 |
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Target: 5'- uGGCGCGaagaUCCUCGACCgcaUCAGCa-- -3' miRNA: 3'- -UCGCGCacg-AGGAGCUGG---AGUCGgaa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 17450 | 0.69 | 0.223 |
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Target: 5'- aGGCGuCG-GCgCCgUGGCCUCGGCCUg -3' miRNA: 3'- -UCGC-GCaCGaGGaGCUGGAGUCGGAa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 7492 | 0.79 | 0.037715 |
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Target: 5'- aGGCGCGauggucggcaccuUGCUCCUCGGCCugcUCGGCCa- -3' miRNA: 3'- -UCGCGC-------------ACGAGGAGCUGG---AGUCGGaa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 14702 | 0.83 | 0.016873 |
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Target: 5'- cGCGCGcGUUCCUCGGCCUCuGCCUg -3' miRNA: 3'- uCGCGCaCGAGGAGCUGGAGuCGGAa -5' |
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| 30564 | 5' | -59.9 | NC_006548.1 | + | 32726 | 1.06 | 0.000312 |
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Target: 5'- gAGCGCGUGCUCCUCGACCUCAGCCUUg -3' miRNA: 3'- -UCGCGCACGAGGAGCUGGAGUCGGAA- -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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