miRNA: 3'- caUGGCGCCuACaGUUUuauGCACGA- -5'
miRNA: 3'- cAUGGCGC------CUACAGuUUUAUGCaCGa -5'
miRNA: 3'- cAUGGCGCCUa-----CAGUUuuAUgCACGA- -5'
miRNA: 3'- caUGGCGCCUACAGUuuuaUGCACGa -5'
miRNA: 3'- -CAUGGCGCCUACAGUUUUAUGCACGA- -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 | |||||||
| 7040 | 3' | -48.4 | NC_001876.1 | + | 8346 | 0.66 | 0.930418 |
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Target: 5'- -gACCGUGGcUGcCAAGuc-CGUGCUa -3' miRNA: 3'- caUGGCGCCuACaGUUUuauGCACGA- -5' |
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| 7040 | 3' | -48.4 | NC_001876.1 | + | 10075 | 0.66 | 0.903571 |
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Target: 5'- cUACCGCGcccccuGGUGUC-GAGUGCG-GCg -3' miRNA: 3'- cAUGGCGC------CUACAGuUUUAUGCaCGa -5' |
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| 7040 | 3' | -48.4 | NC_001876.1 | + | 16070 | 0.72 | 0.632425 |
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Target: 5'- cUGCCGCGGGcaaagaGUCAGuuUGgGUGCUg -3' miRNA: 3'- cAUGGCGCCUa-----CAGUUuuAUgCACGA- -5' |
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| 7040 | 3' | -48.4 | NC_001876.1 | + | 15775 | 0.75 | 0.480391 |
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Target: 5'- -gACCGUGGAUGUUA----GCGUGCc -3' miRNA: 3'- caUGGCGCCUACAGUuuuaUGCACGa -5' |
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| 7040 | 3' | -48.4 | NC_001876.1 | + | 18115 | 1.1 | 0.002541 |
|
Target: 5'- cGUACCGCGGAUGUCAAAAUACGUGCUg -3' miRNA: 3'- -CAUGGCGCCUACAGUUUUAUGCACGA- -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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