miRNA: 3'- agUAACUAA--AAUGGCUUuCGCU-AUCG- -5'
miRNA: 3'- -AGUaACUAaAAUGGCUU------------UCGCUAUCG- -5'
miRNA: 3'- -AGUAACUaaaA--------------UGGCUU---UCGCUAUCG- -5'
miRNA: 3'- aguaACUA--------AAAUGGCUUU---------------CGCUAUCG- -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 |
| Predicted miRNA align pattern | |||||||
| 22476 | 3' | -40.9 | NC_005066.1 | + | 23319 | 0.69 | 1 |
|
Target: 5'- -uGUUGAUUugUUGCUGAAcGUGAuUAGCu -3' miRNA: 3'- agUAACUAA--AAUGGCUUuCGCU-AUCG- -5' |
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| 22476 | 3' | -40.9 | NC_005066.1 | + | 146561 | 0.7 | 1 |
|
Target: 5'- cUCGcUGGUaUUGCUGAAauuguucaggcuGGCGGUAGUg -3' miRNA: 3'- -AGUaACUAaAAUGGCUU------------UCGCUAUCG- -5' |
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| 22476 | 3' | -40.9 | NC_005066.1 | + | 91292 | 0.74 | 0.999925 |
|
Target: 5'- aUCGUUGAaggUaucuccgaggaugaGCCGGAacuGGCGGUAGCa -3' miRNA: 3'- -AGUAACUaaaA--------------UGGCUU---UCGCUAUCG- -5' |
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| 22476 | 3' | -40.9 | NC_005066.1 | + | 148947 | 0.66 | 1 |
|
Target: 5'- ---gUGAUuaucuuucUUUGCUGAAAggugauuauaucauuGCGAUGGCa -3' miRNA: 3'- aguaACUA--------AAAUGGCUUU---------------CGCUAUCG- -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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