miRNA: 3'- -CUGuGCUGGCGag---UAGGCGAAC-CAGu -5'
miRNA: 3'- -CUGuGCUGGCg--AGUAGgCGaaCCAGu -5'
miRNA: 3'- cugUGCUGG-CGAGUAG-GCgaACCAGU- -5'
miRNA: 3'- cUGUGCUGGCGAGUAggcgaACCAGU- -5'
miRNA: 3'- -CUGUGCUGGCGAGUAGGCGAACCAGU- -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 | |||||||
| 12659 | 3' | -55.2 | NC_003345.1 | + | 27383 | 0.66 | 0.788313 |
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Target: 5'- cGAUuCGACCGCccugaAUCUGCUUGaGUCc -3' miRNA: 3'- -CUGuGCUGGCGag---UAGGCGAAC-CAGu -5' |
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| 12659 | 3' | -55.2 | NC_003345.1 | + | 72231 | 0.67 | 0.728055 |
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Target: 5'- aGAC-CGACCGaaaUCGUCgGUggGGUCu -3' miRNA: 3'- -CUGuGCUGGCg--AGUAGgCGaaCCAGu -5' |
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| 12659 | 3' | -55.2 | NC_003345.1 | + | 3487 | 0.69 | 0.632161 |
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Target: 5'- --aGCGGCCaGCUCAUCaCGg-UGGUCAu -3' miRNA: 3'- cugUGCUGG-CGAGUAG-GCgaACCAGU- -5' |
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| 12659 | 3' | -55.2 | NC_003345.1 | + | 69761 | 0.7 | 0.567754 |
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Target: 5'- uGCGCGACCGCUCGUac---UGGUCGg -3' miRNA: 3'- cUGUGCUGGCGAGUAggcgaACCAGU- -5' |
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| 12659 | 3' | -55.2 | NC_003345.1 | + | 60337 | 1.08 | 0.001673 |
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Target: 5'- aGACACGACCGCUCAUCCGCUUGGUCAu -3' miRNA: 3'- -CUGUGCUGGCGAGUAGGCGAACCAGU- -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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