miRNA: 3'- -UACAG-CACUGGCAGU-GAGGga-GGUca -5'
miRNA: 3'- -UACAGCA-CUGGca---GUGAGGGAG-GUCa -5'
miRNA: 3'- uaCAGCACUGGCagUGAGgGAGGUCa -5'
miRNA: 3'- -UACAGCACUGGCAGUGAGGGAGGUCA- -5'
Results 1 - 4 of 4 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 | |||||||
| 1353 | 3' | -56.5 | NC_001335.1 | + | 3730 | 0.66 | 0.587744 |
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Target: 5'- gGUGUCgGUGACCGUCAuCUCCacgUCGa- -3' miRNA: 3'- -UACAG-CACUGGCAGU-GAGGga-GGUca -5' |
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| 1353 | 3' | -56.5 | NC_001335.1 | + | 4675 | 0.67 | 0.544334 |
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Target: 5'- cAUGUCGUgGACCcacugCGCUCUCUCgCGGg -3' miRNA: 3'- -UACAGCA-CUGGca---GUGAGGGAG-GUCa -5' |
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| 1353 | 3' | -56.5 | NC_001335.1 | + | 10508 | 0.73 | 0.253466 |
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Target: 5'- -gGUCGUGACCGg-ACUCgUUCCAGa -3' miRNA: 3'- uaCAGCACUGGCagUGAGgGAGGUCa -5' |
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| 1353 | 3' | -56.5 | NC_001335.1 | + | 13963 | 1.05 | 0.001366 |
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Target: 5'- cAUGUCGUGACCGUCACUCCCUCCAGUc -3' miRNA: 3'- -UACAGCACUGGCAGUGAGGGAGGUCA- -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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