miRNA: 3'- auGGugGACCGgGUCUA-----------CCUCUUGaa -5'
miRNA: 3'- aUGGU-GGaCCGGGUCuACCUCUUGAa -5'
miRNA: 3'- auGGUGGA----CCGGGUCUa--CCUCUUGaa -5'
miRNA: 3'- -AUG-GUGGa-CCGGGUCUa---CCUCUUGaa -5'
miRNA: 3'- -AUGgUGGaCCGGGUCuaCCUC--UUGaa -5'
Results 41 - 45 of 45 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 | |||||||
| 14464 | 5' | -56.3 | NC_003521.1 | + | 201074 | 0.68 | 0.861246 |
|
Target: 5'- -uCCugCUGGCgCAGAUccccguggaacGGAGAACg- -3' miRNA: 3'- auGGugGACCGgGUCUA-----------CCUCUUGaa -5' |
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| 14464 | 5' | -56.3 | NC_003521.1 | + | 228898 | 0.75 | 0.461371 |
|
Target: 5'- cACCAgCCgGGCCCGGcUGGGGGACUc -3' miRNA: 3'- aUGGU-GGaCCGGGUCuACCUCUUGAa -5' |
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| 14464 | 5' | -56.3 | NC_003521.1 | + | 233713 | 0.69 | 0.794704 |
|
Target: 5'- -uCCACCUcagcGGCCUGGAgaaGGAGGACg- -3' miRNA: 3'- auGGUGGA----CCGGGUCUa--CCUCUUGaa -5' |
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| 14464 | 5' | -56.3 | NC_003521.1 | + | 236324 | 0.69 | 0.77646 |
|
Target: 5'- uUACuCAUCggGGCCCGGAcgggGGAGGACg- -3' miRNA: 3'- -AUG-GUGGa-CCGGGUCUa---CCUCUUGaa -5' |
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| 14464 | 5' | -56.3 | NC_003521.1 | + | 239835 | 0.67 | 0.889849 |
|
Target: 5'- gUACgGCC-GGCCCAGcgGGAGcaGACc- -3' miRNA: 3'- -AUGgUGGaCCGGGUCuaCCUC--UUGaa -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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