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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 1299 | 5' | -57.5 | NC_001331.1 | + | 307 | 0.66 | 0.15181 |
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Target: 5'- gGCGGCaaGCCGAUggcGCCGAccGCccaagccCCGGc -3' miRNA: 3'- -CGCCG--UGGCUA---CGGCUucCGaa-----GGCC- -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 4952 | 0.67 | 0.12724 |
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Target: 5'- aGCGGCAgugcaugcgaucaaCGAgaucaGCCGGAGGCgUCCa- -3' miRNA: 3'- -CGCCGUg-------------GCUa----CGGCUUCCGaAGGcc -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 2074 | 0.68 | 0.100405 |
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Target: 5'- gGCGGCACCGGcaaUGgUGAcGGCagCgGGg -3' miRNA: 3'- -CGCCGUGGCU---ACgGCUuCCGaaGgCC- -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 4300 | 0.69 | 0.082661 |
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Target: 5'- -aGGCAUgagCGAUagGCCGAAGGCgcggCCGa -3' miRNA: 3'- cgCCGUG---GCUA--CGGCUUCCGaa--GGCc -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 1138 | 0.69 | 0.088215 |
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Target: 5'- cCGGUAcCCGGUGauGAAGGCg-CCGGc -3' miRNA: 3'- cGCCGU-GGCUACggCUUCCGaaGGCC- -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 4125 | 0.7 | 0.068157 |
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Target: 5'- aGCGGCgacuggccccugGCCGGUGCgucugCGGAGGCggcaacaggcgcugCCGGa -3' miRNA: 3'- -CGCCG------------UGGCUACG-----GCUUCCGaa------------GGCC- -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 720 | 0.78 | 0.013653 |
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Target: 5'- uCGGCAUCGGUGCCGcuGGCgUCCuGGg -3' miRNA: 3'- cGCCGUGGCUACGGCuuCCGaAGG-CC- -5' |
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| 1299 | 5' | -57.5 | NC_001331.1 | + | 742 | 1.13 | 0.000016 |
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Target: 5'- aGCGGCACCGAUGCCGAAGGCUUCCGGg -3' miRNA: 3'- -CGCCGUGGCUACGGCUUCCGAAGGCC- -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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