miRNA: 3'- uUCUACGUACUuaUGCCGa---CCaGUUu -5'
miRNA: 3'- -UUCU----ACGUACu---UAUGCCGaCCAGUuu -5'
miRNA: 3'- -UUCUACGUACUUAUGCCGACCAGUUU- -5'
miRNA: 3'- -UUCUACGUACUUAUGCCGACCAGUUU- -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 | |||||||
| 17367 | 3' | -49 | NC_004367.1 | + | 132357 | 0.68 | 0.976353 |
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Target: 5'- cGGAUGCAUGA--ACGGCgcagGG-CAAc -3' miRNA: 3'- uUCUACGUACUuaUGCCGa---CCaGUUu -5' |
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| 17367 | 3' | -49 | NC_004367.1 | + | 64287 | 0.69 | 0.970552 |
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Target: 5'- aAGGAcaagUGCAUGugucAUGCGGCaGGUCAu- -3' miRNA: 3'- -UUCU----ACGUACu---UAUGCCGaCCAGUuu -5' |
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| 17367 | 3' | -49 | NC_004367.1 | + | 88213 | 1.04 | 0.018271 |
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Target: 5'- cAAGAUGCAUGAAUACGGCUGGUCAAAa -3' miRNA: 3'- -UUCUACGUACUUAUGCCGACCAGUUU- -5' |
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| 17367 | 3' | -49 | NC_004367.1 | + | 88351 | 1.04 | 0.018271 |
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Target: 5'- cAAGAUGCAUGAAUACGGCUGGUCAAAa -3' miRNA: 3'- -UUCUACGUACUUAUGCCGACCAGUUU- -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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