miRNA: 3'- uACGGU------AAGAa---UUGGGCGUGa---CCUAC- -5'
miRNA: 3'- -UACGGuAAGaauUGGGCgUGACCUAC- -5'
miRNA: 3'- -UACGGUa-AGAaUUGgGCGUGACCUac -5'
miRNA: 3'- -UACGGUAAGAAUUGGGCGUGACCUAC- -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 | |||||||
| 2516 | 5' | -51 | NC_001454.1 | + | 22258 | 0.66 | 0.757443 |
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Target: 5'- uUGCCAcuggccUUUUgaacGACCUGCACgccgGGGUGa -3' miRNA: 3'- uACGGU------AAGAa---UUGGGCGUGa---CCUAC- -5' |
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| 2516 | 5' | -51 | NC_001454.1 | + | 28023 | 0.68 | 0.640498 |
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Target: 5'- gGUGCC-UUC---ACCUGgGCUGGAUGc -3' miRNA: 3'- -UACGGuAAGaauUGGGCgUGACCUAC- -5' |
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| 2516 | 5' | -51 | NC_001454.1 | + | 15646 | 0.7 | 0.533871 |
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Target: 5'- aGUGCCGggUCUaAGCaCGCGCUGGAc- -3' miRNA: 3'- -UACGGUa-AGAaUUGgGCGUGACCUac -5' |
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| 2516 | 5' | -51 | NC_001454.1 | + | 12578 | 1.06 | 0.001913 |
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Target: 5'- aAUGCCAUUCUUAACCCGCACUGGAUGc -3' miRNA: 3'- -UACGGUAAGAAUUGGGCGUGACCUAC- -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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