miRNA: 3'- -UAGUUGUGGAucuAGGgUCU---UCCACA- -5'
miRNA: 3'- -UAGUUGUGGaUC----------UAGGG---------UCUUCCACA- -5'
miRNA: 3'- -UAGUUGUGGauc--UAGGGUcUUCCACa -5'
miRNA: 3'- uAGUUGUGGaUCUAGGG--UCUUCCACa -5'
miRNA: 3'- -UAGUUGUGGAUCUAGGGUCUUCCACA- -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 | |||||||
| 12463 | 5' | -51.2 | NC_003324.1 | + | 38611 | 0.66 | 0.879485 |
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Target: 5'- gGUCAACACCU---UCUgGGAucuAGGUGUu -3' miRNA: 3'- -UAGUUGUGGAucuAGGgUCU---UCCACA- -5' |
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| 12463 | 5' | -51.2 | NC_003324.1 | + | 39581 | 0.66 | 0.871386 |
|
Target: 5'- cGUCAGCACC-AGccuccggaucGUCCUcgacagggcGGAAGGUGUu -3' miRNA: 3'- -UAGUUGUGGaUC----------UAGGG---------UCUUCCACA- -5' |
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| 12463 | 5' | -51.2 | NC_003324.1 | + | 23057 | 0.69 | 0.75589 |
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Target: 5'- aAUCGGCGCCccacuGUCCCAcGAGGUGg -3' miRNA: 3'- -UAGUUGUGGauc--UAGGGUcUUCCACa -5' |
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| 12463 | 5' | -51.2 | NC_003324.1 | + | 44189 | 0.76 | 0.367665 |
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Target: 5'- uUCGAUGCCaAGAUCCUgcGGAAGGUGa -3' miRNA: 3'- uAGUUGUGGaUCUAGGG--UCUUCCACa -5' |
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| 12463 | 5' | -51.2 | NC_003324.1 | + | 38524 | 1.05 | 0.004103 |
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Target: 5'- cAUCAACACCUAGAUCCCAGAAGGUGUu -3' miRNA: 3'- -UAGUUGUGGAUCUAGGGUCUUCCACA- -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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