miRNA: 3'- gGAGUAA-CGGCaCC-CguCU---UCGAUAU- -5'
miRNA: 3'- -GGAguAACGGCACC-CGUcuUCGAuau -5'
miRNA: 3'- -GGaGUA---ACGGCACCCGU-CUUCGAUau -5'
miRNA: 3'- -GGAGUAACGGCAcCCGUCUuCGAUau -5'
miRNA: 3'- -GGAGUAACGGCACCCGUCUUCGAUAU- -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 | |||||||
| 27307 | 3' | -52.1 | NC_005856.1 | + | 8170 | 0.66 | 0.937233 |
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Target: 5'- gCUCGUUgGCCGcGGuGguGAccaGGCUGUGg -3' miRNA: 3'- gGAGUAA-CGGCaCC-CguCU---UCGAUAU- -5' |
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| 27307 | 3' | -52.1 | NC_005856.1 | + | 76977 | 0.66 | 0.920414 |
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Target: 5'- uCCUguUUGCCGUGGuGCG--AGCUu-- -3' miRNA: 3'- -GGAguAACGGCACC-CGUcuUCGAuau -5' |
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| 27307 | 3' | -52.1 | NC_005856.1 | + | 89562 | 0.67 | 0.907825 |
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Target: 5'- uCC-CGUccaUGCUGUGGGUGuGGAGCUGc- -3' miRNA: 3'- -GGaGUA---ACGGCACCCGU-CUUCGAUau -5' |
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| 27307 | 3' | -52.1 | NC_005856.1 | + | 85422 | 0.69 | 0.829352 |
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Target: 5'- gCUUUAUUGCCGUuGGUGGAuGCUGg- -3' miRNA: 3'- -GGAGUAACGGCAcCCGUCUuCGAUau -5' |
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| 27307 | 3' | -52.1 | NC_005856.1 | + | 74245 | 1.09 | 0.00342 |
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Target: 5'- gCCUCAUUGCCGUGGGCAGAAGCUAUAu -3' miRNA: 3'- -GGAGUAACGGCACCCGUCUUCGAUAU- -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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