miRNA: 3'- -CGGUGGc------AGGACAGAGACagAGUAUA- -5'
miRNA: 3'- cGGUGGCaGGACaGAGACaGAGUaua -5'
miRNA: 3'- -CGGUGGCAGGaCAGAga--CAGa----GUAUa -5'
miRNA: 3'- -CGGUGGCAGGACAGAGACAGAGUAUA- -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 | |||||||
| 8435 | 5' | -52.8 | NC_002166.1 | + | 32526 | 0.66 | 0.756357 |
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Target: 5'- aGCCAUUuaaauauUCCUGUUUCUGagUCAUAUg -3' miRNA: 3'- -CGGUGGc------AGGACAGAGACagAGUAUA- -5' |
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| 8435 | 5' | -52.8 | NC_002166.1 | + | 30982 | 0.66 | 0.745509 |
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Target: 5'- aUCACCG-CCUG-CUCUGcCUCGa-- -3' miRNA: 3'- cGGUGGCaGGACaGAGACaGAGUaua -5' |
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| 8435 | 5' | -52.8 | NC_002166.1 | + | 14625 | 0.67 | 0.678235 |
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Target: 5'- cGCCGCCGUCC-GUCUgcagGUCaauugCAUAa -3' miRNA: 3'- -CGGUGGCAGGaCAGAga--CAGa----GUAUa -5' |
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| 8435 | 5' | -52.8 | NC_002166.1 | + | 38623 | 1.08 | 0.001387 |
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Target: 5'- aGCCACCGUCCUGUCUCUGUCUCAUAUc -3' miRNA: 3'- -CGGUGGCAGGACAGAGACAGAGUAUA- -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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