miRNA: 3'- -CCUGUGGaGcAGGUUAACCUUuGGGG- -5'
miRNA: 3'- -CCUGUggagCAGGUua---ACCUUUGGGG- -5'
miRNA: 3'- ccUGUGGAGCAGgu-----UAACCuuUGGGG- -5'
miRNA: 3'- cCUGUGgaGC-AGGUU-AACCUUUGGGG- -5'
miRNA: 3'- cCUGUGGAGCAGGUUAACCUUUGGGG- -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 | |||||||
| 17700 | 3' | -50.4 | NC_004579.1 | + | 1647 | 0.66 | 0.390359 |
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Target: 5'- gGGGCGCC-CuUUCGGUUGGGAuCUCUg -3' miRNA: 3'- -CCUGUGGaGcAGGUUAACCUUuGGGG- -5' |
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| 17700 | 3' | -50.4 | NC_004579.1 | + | 4730 | 0.68 | 0.292133 |
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Target: 5'- cGGGCAa---GUCCGuuuccUGGAAGCUCCa -3' miRNA: 3'- -CCUGUggagCAGGUua---ACCUUUGGGG- -5' |
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| 17700 | 3' | -50.4 | NC_004579.1 | + | 2670 | 0.69 | 0.258621 |
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Target: 5'- -cGCAUCUCGUCaggguuuAUUGG--GCCCCu -3' miRNA: 3'- ccUGUGGAGCAGgu-----UAACCuuUGGGG- -5' |
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| 17700 | 3' | -50.4 | NC_004579.1 | + | 86 | 0.72 | 0.140314 |
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Target: 5'- uGACACagUGcUCCGGuUUGGGGACCCCg -3' miRNA: 3'- cCUGUGgaGC-AGGUU-AACCUUUGGGG- -5' |
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| 17700 | 3' | -50.4 | NC_004579.1 | + | 158 | 1.1 | 0.000164 |
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Target: 5'- uGACACCUCGUCCAAUUGGAAACCCCu -3' miRNA: 3'- cCUGUGGAGCAGGUUAACCUUUGGGG- -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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