miRNA: 3'- -UCGUCGUCAUGcuuaGaCGA-CGCCGG- -5'
miRNA: 3'- -UCGu----CGUCa--UGCUUaGACGACG-CCGG- -5'
miRNA: 3'- -UCGUCG--------UCAugCUUAGa-CGACGCCGG- -5'
miRNA: 3'- -UCGUCGUCAUGCUUAGACGACGCCGG- -5'
Results 21 - 24 of 24 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 | |||||||
| 1385 | 5' | -54.6 | NC_001335.1 | + | 24126 | 0.74 | 0.287876 |
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Target: 5'- gAGCGGCGGUGCugg-C-GCUcGCGGCCa -3' miRNA: 3'- -UCGUCGUCAUGcuuaGaCGA-CGCCGG- -5' |
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| 1385 | 5' | -54.6 | NC_001335.1 | + | 32580 | 0.75 | 0.227382 |
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Target: 5'- gAGCugccuGCGGggcGCGAGaCUGCUGCuGGCCa -3' miRNA: 3'- -UCGu----CGUCa--UGCUUaGACGACG-CCGG- -5' |
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| 1385 | 5' | -54.6 | NC_001335.1 | + | 51329 | 0.79 | 0.130751 |
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Target: 5'- uGGCAGCgaacuaaaGGUuuGAGUCggGCUGCGGCCc -3' miRNA: 3'- -UCGUCG--------UCAugCUUAGa-CGACGCCGG- -5' |
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| 1385 | 5' | -54.6 | NC_001335.1 | + | 33098 | 1.13 | 0.00051 |
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Target: 5'- aAGCAGCAGUACGAAUCUGCUGCGGCCa -3' miRNA: 3'- -UCGUCGUCAUGCUUAGACGACGCCGG- -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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