miRNA: 3'- -UGUGUAC-CGGCau-GuGUUGUUCUCau -5'
miRNA: 3'- uGUGU-ACCGGCa---UGUGUUGu--UCUCau -5'
miRNA: 3'- ugUGUACCGGCaUGUGuUGUUCUCau -5'
miRNA: 3'- -UGUGUACCGGCAUGUGUUGUUCUCAU- -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 | |||||||
| 6214 | 5' | -49.7 | NC_001844.1 | + | 127178 | 0.66 | 0.994972 |
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Target: 5'- gGCACAUGuGCCGaguC-CAAUAAGAGc- -3' miRNA: 3'- -UGUGUAC-CGGCau-GuGUUGUUCUCau -5' |
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| 6214 | 5' | -49.7 | NC_001844.1 | + | 144334 | 0.67 | 0.992116 |
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Target: 5'- cCACGuUGGCCGcccgACACAGCuucAGGGg- -3' miRNA: 3'- uGUGU-ACCGGCa---UGUGUUGu--UCUCau -5' |
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| 6214 | 5' | -49.7 | NC_001844.1 | + | 143070 | 0.75 | 0.772749 |
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Target: 5'- -gACGUGGCCG-GCACcACGAGAGg- -3' miRNA: 3'- ugUGUACCGGCaUGUGuUGUUCUCau -5' |
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| 6214 | 5' | -49.7 | NC_001844.1 | + | 72599 | 1.07 | 0.012898 |
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Target: 5'- uACACAUGGCCGUACACAACAAGAGUAu -3' miRNA: 3'- -UGUGUACCGGCAUGUGUUGUUCUCAU- -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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