miRNA: 3'- -ACUCAgaaAGAUC-GUCUCGCGgCUUc -5'
miRNA: 3'- aCUCagaAAGAUCGu----CUCGCGGCUUc -5'
miRNA: 3'- aCUCAGaaAGAUCGu-CUCGCGgCuuC- -5'
miRNA: 3'- acuCAGAaaGAUCG----UCUCGCGGCUUC- -5'
miRNA: 3'- -ACUCAGAAAGAUCGUCUCGCGGCUUC- -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 | |||||||
| 13382 | 5' | -51.3 | NC_003409.1 | + | 9818 | 0.66 | 0.985266 |
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Target: 5'- gUGGGUag-UCUGGaUGGAGCGCgGGAa -3' miRNA: 3'- -ACUCAgaaAGAUC-GUCUCGCGgCUUc -5' |
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| 13382 | 5' | -51.3 | NC_003409.1 | + | 74068 | 0.68 | 0.960958 |
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Target: 5'- cGAGgc-UUCUGGUugggcGAGCGCCGGGa -3' miRNA: 3'- aCUCagaAAGAUCGu----CUCGCGGCUUc -5' |
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| 13382 | 5' | -51.3 | NC_003409.1 | + | 12282 | 0.69 | 0.911257 |
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Target: 5'- aGAGUC--UCUGGCcuGGGUGCgGggGg -3' miRNA: 3'- aCUCAGaaAGAUCGu-CUCGCGgCuuC- -5' |
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| 13382 | 5' | -51.3 | NC_003409.1 | + | 49526 | 0.72 | 0.790523 |
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Target: 5'- --cGUCUggCUGGCgcucAGGGUGCCGGAGu -3' miRNA: 3'- acuCAGAaaGAUCG----UCUCGCGGCUUC- -5' |
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| 13382 | 5' | -51.3 | NC_003409.1 | + | 39561 | 1.1 | 0.00557 |
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Target: 5'- uUGAGUCUUUCUAGCAGAGCGCCGAAGa -3' miRNA: 3'- -ACUCAGAAAGAUCGUCUCGCGGCUUC- -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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