miRNA: 3'- -CCGUguCaaUCCaCG-AUGACGCGaau -5'
miRNA: 3'- -CCGUGUCAAUCCACGAUGACGCGAAU- -5'
miRNA: 3'- cCGUGUCaa----UCCACGaUGAC-GCGaau -5'
miRNA: 3'- ccgUGUCAAUCCA--CGAUGa---CGCGAau -5'
miRNA: 3'- cCGUGUCaa----UCCACGaUGAC-GCGaau -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 |
| Predicted miRNA align pattern | |||||||
| 31325 | 3' | -51.6 | NC_006623.1 | + | 25203 | 0.66 | 0.977166 |
|
Target: 5'- cGGCAguGgcGGGcGCaUAUUGCGCa-- -3' miRNA: 3'- -CCGUguCaaUCCaCG-AUGACGCGaau -5' |
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| 31325 | 3' | -51.6 | NC_006623.1 | + | 112886 | 1.1 | 0.005369 |
|
Target: 5'- gGGCACAGUUAGGUGCUACUGCGCUUAg -3' miRNA: 3'- -CCGUGUCAAUCCACGAUGACGCGAAU- -5' |
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| 31325 | 3' | -51.6 | NC_006623.1 | + | 122063 | 0.66 | 0.974537 |
|
Target: 5'- aGCGCAGgcggcaAGGUGCcGCUGuCGCc-- -3' miRNA: 3'- cCGUGUCaa----UCCACGaUGAC-GCGaau -5' |
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| 31325 | 3' | -51.6 | NC_006623.1 | + | 129597 | 0.67 | 0.96863 |
|
Target: 5'- --aGCAGUUAGGUauGUUGCguggGCGCUc- -3' miRNA: 3'- ccgUGUCAAUCCA--CGAUGa---CGCGAau -5' |
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| 31325 | 3' | -51.6 | NC_006623.1 | + | 139549 | 0.66 | 0.974537 |
|
Target: 5'- aGCGCAGgcggcaAGGUGCcGCUGuCGCc-- -3' miRNA: 3'- cCGUGUCaa----UCCACGaUGAC-GCGaau -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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