miRNA: 3'- uGGCAGUaCCuC-AGGUaGGgCUCCCC- -5'
miRNA: 3'- -UGGCAGUACCucaGGU-------------AGGGCUCCcc -5'
miRNA: 3'- -UGGCAGUACCUCAGGUAGGGCUCCCC- -5'
miRNA: 3'- -UGGCAGUACCUCAGGUAGGGCUCCCC- -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 | |||||||
| 2069 | 5' | -57.8 | NC_001348.1 | + | 61248 | 0.68 | 0.729052 |
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Target: 5'- cCCGUCG-GGcGuUCCAaCCgGAGGGGa -3' miRNA: 3'- uGGCAGUaCCuC-AGGUaGGgCUCCCC- -5' |
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| 2069 | 5' | -57.8 | NC_001348.1 | + | 502 | 0.68 | 0.708431 |
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Target: 5'- uGCUGUCGUGGucgCCAuuguugccguuuuUCCCGAGGa- -3' miRNA: 3'- -UGGCAGUACCucaGGU-------------AGGGCUCCcc -5' |
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| 2069 | 5' | -57.8 | NC_001348.1 | + | 123249 | 1.11 | 0.001414 |
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Target: 5'- gACCGUCAUGGAGUCCAUCCCGAGGGGg -3' miRNA: 3'- -UGGCAGUACCUCAGGUAGGGCUCCCC- -5' |
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| 2069 | 5' | -57.8 | NC_001348.1 | + | 106543 | 1.11 | 0.001414 |
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Target: 5'- gACCGUCAUGGAGUCCAUCCCGAGGGGg -3' miRNA: 3'- -UGGCAGUACCUCAGGUAGGGCUCCCC- -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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