miRNA: 3'- -AGUCa-UGgACuuUCa----CUACCa-CGCCC- -5'
miRNA: 3'- agUCAugGACUUUCa-CUACCACgCCc -5'
miRNA: 3'- agucaUGGACUuuCACUACCACGC-Cc -5'
miRNA: 3'- -AGUCAUGGACUUUCACUACCACGCCC- -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 | |||||||
| 31612 | 3' | -50.7 | NC_006879.1 | + | 17246 | 0.66 | 0.826782 |
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Target: 5'- gUCGGgcGCgUGggGGgcggcGGUGGcgGCGGGg -3' miRNA: 3'- -AGUCa-UGgACuuUCa----CUACCa-CGCCC- -5' |
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| 31612 | 3' | -50.7 | NC_006879.1 | + | 2462 | 0.66 | 0.816993 |
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Target: 5'- -uGGUugCUGGAAGgcGGUGGUG-GGa -3' miRNA: 3'- agUCAugGACUUUCa-CUACCACgCCc -5' |
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| 31612 | 3' | -50.7 | NC_006879.1 | + | 32041 | 0.69 | 0.651129 |
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Target: 5'- ----aACCUGAuuGUGAUGGUGUGcGa -3' miRNA: 3'- agucaUGGACUuuCACUACCACGC-Cc -5' |
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| 31612 | 3' | -50.7 | NC_006879.1 | + | 6854 | 1.13 | 0.000951 |
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Target: 5'- aUCAGUACCUGAAAGUGAUGGUGCGGGa -3' miRNA: 3'- -AGUCAUGGACUUUCACUACCACGCCC- -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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