miRNA: 3'- -CGCuuUuaGa----C-GUGAggCCCG-CGCCu -5'
miRNA: 3'- -CGCUUUuaGACgUG----AGGCCCGCgCCU- -5'
miRNA: 3'- cGCUUUUAGa-----CGUGAGg-CCCGCGccu -5'
miRNA: 3'- -CGCUUUUagaCGUGAGGCCcg--CGCCU- -5'
miRNA: 3'- -CGCUUUUAGACGUGAGGCCCGCGCCU- -5'
Results 1 - 5 of 5 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 | |||||||
| 7125 | 3' | -54.9 | NC_001895.1 | + | 5869 | 0.66 | 0.606331 |
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Target: 5'- cGCGggGcgCgggugGcCGCUuuGGGCuGCGGc -3' miRNA: 3'- -CGCuuUuaGa----C-GUGAggCCCG-CGCCu -5' |
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| 7125 | 3' | -54.9 | NC_001895.1 | + | 7326 | 0.66 | 0.572342 |
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Target: 5'- cGCGGAGcaCUGgAUgacaUCCGGGCG-GGAc -3' miRNA: 3'- -CGCUUUuaGACgUG----AGGCCCGCgCCU- -5' |
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| 7125 | 3' | -54.9 | NC_001895.1 | + | 29987 | 0.69 | 0.423215 |
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Target: 5'- cCGGAGGUCgugaggGCGCUCagGGGCGCa-- -3' miRNA: 3'- cGCUUUUAGa-----CGUGAGg-CCCGCGccu -5' |
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| 7125 | 3' | -54.9 | NC_001895.1 | + | 19797 | 0.76 | 0.151426 |
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Target: 5'- cGCGAAAAg--GCGCUCCGGcgaaGCGGAa -3' miRNA: 3'- -CGCUUUUagaCGUGAGGCCcg--CGCCU- -5' |
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| 7125 | 3' | -54.9 | NC_001895.1 | + | 23134 | 1.11 | 0.000413 |
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Target: 5'- cGCGAAAAUCUGCACUCCGGGCGCGGAu -3' miRNA: 3'- -CGCUUUUAGACGUGAGGCCCGCGCCU- -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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