miRNA: 3'- -UGG-CCGGGCUCGgCCGGCUUGGCguu -5'
miRNA: 3'- -UGGCCGGGCUCGGCCGG-------------CUUGG-CGUu -5'
miRNA: 3'- -UGG---CCGGGCUCGGCCGGC---------UUGGCGuu -5'
miRNA: 3'- -UGGCCGGGCUCGGCCGGCUUGGCGUU- -5'
Results 21 - 24 of 24 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 | |||||||
| 1380 | 5' | -64.8 | NC_001335.1 | + | 5957 | 0.75 | 0.051686 |
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Target: 5'- gACCaGGCCCGAGCgGGUCGGGCUGg-- -3' miRNA: 3'- -UGG-CCGGGCUCGgCCGGCUUGGCguu -5' |
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| 1380 | 5' | -64.8 | NC_001335.1 | + | 31072 | 0.75 | 0.051543 |
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Target: 5'- gGCCGGCUCGGGCCGGUCucaggcuugaccuGAGCCaGCGc -3' miRNA: 3'- -UGGCCGGGCUCGGCCGG-------------CUUGG-CGUu -5' |
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| 1380 | 5' | -64.8 | NC_001335.1 | + | 6537 | 0.78 | 0.031286 |
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Target: 5'- gACCcaaGGCCCGAGCUGGCCGcauuuguacAACCGCu- -3' miRNA: 3'- -UGG---CCGGGCUCGGCCGGC---------UUGGCGuu -5' |
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| 1380 | 5' | -64.8 | NC_001335.1 | + | 31141 | 1.05 | 0.000212 |
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Target: 5'- gACCGGCCCGAGCCGGCCGAACCGCAAg -3' miRNA: 3'- -UGGCCGGGCUCGGCCGGCUUGGCGUU- -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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