miRNA: 3'- agaUGGUG-------CCUGCGG-GG-UCGGuCACU- -5'
miRNA: 3'- -AGaUGGugCCuGCGGGGUCGGuCACu -5'
miRNA: 3'- aGAUgGUGCCUGCGGGGUC---------GGUCACU- -5'
miRNA: 3'- aGAUGGUGcc---UGCGGGGUCGGucacu -5'
miRNA: 3'- -AGAUGGUGCCUGCGGGGUCgGUCACU- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 31962 | 3' | -58.8 | NC_006947.1 | + | 8535 | 0.66 | 0.15908 |
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Target: 5'- --cACCAUugaucaaGGACGCCgCCgAGCCuGUGGc -3' miRNA: 3'- agaUGGUG-------CCUGCGG-GG-UCGGuCACU- -5' |
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| 31962 | 3' | -58.8 | NC_006947.1 | + | 7329 | 0.66 | 0.154791 |
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Target: 5'- gUCgGCCugGG-CGCCCUGGCU-GUGu -3' miRNA: 3'- -AGaUGGugCCuGCGGGGUCGGuCACu -5' |
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| 31962 | 3' | -58.8 | NC_006947.1 | + | 9963 | 0.67 | 0.132817 |
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Target: 5'- aCUGgCGUGGAUGCUCCAGgucguucuuCCAGUGGg -3' miRNA: 3'- aGAUgGUGCCUGCGGGGUC---------GGUCACU- -5' |
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| 31962 | 3' | -58.8 | NC_006947.1 | + | 7418 | 0.69 | 0.083057 |
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Target: 5'- gCUGCCACcaucaGCGCCCCAGCCu---- -3' miRNA: 3'- aGAUGGUGcc---UGCGGGGUCGGucacu -5' |
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| 31962 | 3' | -58.8 | NC_006947.1 | + | 1691 | 0.96 | 0.000433 |
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Target: 5'- gUCUACCACGGACGCCCCAG-CAGUGAc -3' miRNA: 3'- -AGAUGGUGCCUGCGGGGUCgGUCACU- -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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