miRNA: 3'- -AUGC-AUGCaac---CCGCUGUAGUCCCGa -5'
miRNA: 3'- auGC-AUGCAACCCGCUGUAGU--CCCGa -5'
miRNA: 3'- aUGCAuGCAACCC--GCUGUAGUCCCGa -5'
miRNA: 3'- -AUGCAUGCAACCCGCUGUAGUCCCGA- -5'
Results 1 - 4 of 4 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 | |||||||
| 28194 | 5' | -55.1 | NC_005891.1 | + | 16091 | 0.7 | 0.386172 |
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Target: 5'- aUACGcUGCGgaaucuGGCGAUAUCGGGGUc -3' miRNA: 3'- -AUGC-AUGCaac---CCGCUGUAGUCCCGa -5' |
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| 28194 | 5' | -55.1 | NC_005891.1 | + | 15605 | 0.75 | 0.175446 |
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Target: 5'- -uCGaUACGUUGGGUGGCGUCAaaGGGUa -3' miRNA: 3'- auGC-AUGCAACCCGCUGUAGU--CCCGa -5' |
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| 28194 | 5' | -55.1 | NC_005891.1 | + | 4020 | 0.78 | 0.110941 |
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Target: 5'- aGCGUcUGUUGGGgcCGACAUUAGGGCg -3' miRNA: 3'- aUGCAuGCAACCC--GCUGUAGUCCCGa -5' |
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| 28194 | 5' | -55.1 | NC_005891.1 | + | 1769 | 1.07 | 0.000913 |
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Target: 5'- gUACGUACGUUGGGCGACAUCAGGGCUg -3' miRNA: 3'- -AUGCAUGCAACCCGCUGUAGUCCCGA- -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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