miRNA: 3'- -CGGACUU---UCUGU--UUUUUGUCaCgACU- -5'
miRNA: 3'- -CGGAC-UUUCUGUuuuuu--GUCaCGACu -5'
miRNA: 3'- cGGACuUUCUGUUUUuUGUcACGACU- -5'
miRNA: 3'- -CGGAcUUUCUGuUUUUUgUCACGACU- -5'
miRNA: 3'- -CGGACUUUCUGUUUUUUGUCACGACU- -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 | |||||||
| 33642 | 3' | -43.6 | NC_007612.1 | + | 3270 | 0.66 | 0.806413 |
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Target: 5'- gGCCUGAAcggGGACGgaGAAGACGGaG-UGAa -3' miRNA: 3'- -CGGACUU---UCUGU--UUUUUGUCaCgACU- -5' |
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| 33642 | 3' | -43.6 | NC_007612.1 | + | 4451 | 0.66 | 0.781518 |
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Target: 5'- aGCCUGcAAGGACAucuuccuCAG-GCUGc -3' miRNA: 3'- -CGGAC-UUUCUGUuuuuu--GUCaCGACu -5' |
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| 33642 | 3' | -43.6 | NC_007612.1 | + | 560 | 0.69 | 0.645639 |
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Target: 5'- uCCUG-AGGACGAGA-ACAaUGCUGGa -3' miRNA: 3'- cGGACuUUCUGUUUUuUGUcACGACU- -5' |
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| 33642 | 3' | -43.6 | NC_007612.1 | + | 5096 | 0.75 | 0.328721 |
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Target: 5'- cGCCUuGAGGAUuGGAGAaAGUGCUGAg -3' miRNA: 3'- -CGGAcUUUCUGuUUUUUgUCACGACU- -5' |
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| 33642 | 3' | -43.6 | NC_007612.1 | + | 493 | 1.13 | 0.000596 |
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Target: 5'- uGCCUGAAAGACAAAAAACAGUGCUGAu -3' miRNA: 3'- -CGGACUUUCUGUUUUUUGUCACGACU- -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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