miRNA: 3'- agaGGCUGaAGCCGCgcUUGCa-GACG- -5'
miRNA: 3'- agAGGCUGaagCCGCGCUUGCaga-----CG- -5'
miRNA: 3'- aGAGGCUGaa-GCCG---CGCUUGCa-GACG- -5'
miRNA: 3'- aGAG-GCUGa-AGCCGCGc--UUGCAGaCG- -5'
miRNA: 3'- aGAGGCugAAG---------CCGCGCUU-GCAGaCG- -5'
Results 21 - 25 of 25 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 | |||||||
| 22560 | 3' | -54.5 | NC_005091.1 | + | 46092 | 0.67 | 0.746162 |
|
Target: 5'- --aCCGAUaUCGGCGaaGACGagCUGCa -3' miRNA: 3'- agaGGCUGaAGCCGCgcUUGCa-GACG- -5' |
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| 22560 | 3' | -54.5 | NC_005091.1 | + | 48592 | 0.68 | 0.660939 |
|
Target: 5'- -aUCCGGCga-GGCGCGAAUGgcgggaggGCg -3' miRNA: 3'- agAGGCUGaagCCGCGCUUGCaga-----CG- -5' |
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| 22560 | 3' | -54.5 | NC_005091.1 | + | 49026 | 0.7 | 0.584755 |
|
Target: 5'- aUUCUGACgugCGGUgcuGCGGGCGcgCUGCu -3' miRNA: 3'- aGAGGCUGaa-GCCG---CGCUUGCa-GACG- -5' |
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| 22560 | 3' | -54.5 | NC_005091.1 | + | 51994 | 0.68 | 0.650056 |
|
Target: 5'- gCUCgCGAUggUCGGCGCuacGGCGUC-GCa -3' miRNA: 3'- aGAG-GCUGa-AGCCGCGc--UUGCAGaCG- -5' |
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| 22560 | 3' | -54.5 | NC_005091.1 | + | 55827 | 0.68 | 0.660939 |
|
Target: 5'- cCUCCGuuUUCgguuucaggGGCGCGGGcCGUCaGCg -3' miRNA: 3'- aGAGGCugAAG---------CCGCGCUU-GCAGaCG- -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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