miRNA: 3'- gagCGUCGCgCCU------GUGCUAGAaAUCG- -5'
miRNA: 3'- -GAGCGUCGcgCC-UGUGCUAGaaaUCG- -5'
miRNA: 3'- -GAGCGUCGCGCCUgugCUAGaaa-UCG- -5'
miRNA: 3'- -GAGCGUCGCGCCUGUGCUAGAAAUCG- -5'
Results 21 - 24 of 24 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 | |||||||
| 33264 | 3' | -52.1 | NC_007605.1 | + | 62586 | 0.72 | 0.841377 |
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Target: 5'- --gGCAGCGgGGAggugcuCGCGGUCUcUGGCc -3' miRNA: 3'- gagCGUCGCgCCU------GUGCUAGAaAUCG- -5' |
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| 33264 | 3' | -52.1 | NC_007605.1 | + | 115850 | 0.73 | 0.79781 |
|
Target: 5'- cCUCGCAGUuuGGcACGCGAUUgg-GGCa -3' miRNA: 3'- -GAGCGUCGcgCC-UGUGCUAGaaaUCG- -5' |
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| 33264 | 3' | -52.1 | NC_007605.1 | + | 134597 | 0.73 | 0.77924 |
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Target: 5'- gCUUGCGGCGCGGGa--GAUCcuggAGCg -3' miRNA: 3'- -GAGCGUCGCGCCUgugCUAGaaa-UCG- -5' |
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| 33264 | 3' | -52.1 | NC_007605.1 | + | 2623 | 1.12 | 0.005135 |
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Target: 5'- uCUCGCAGCGCGGACACGAUCUUUAGCu -3' miRNA: 3'- -GAGCGUCGCGCCUGUGCUAGAAAUCG- -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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