miRNA: 3'- cuUGACCCGCaGUCag-UACCG---AUGGC- -5'
miRNA: 3'- cuUGaCCCGCAGuCaGUACCgAUGGC- -5'
miRNA: 3'- cuUGACC-CGC-----AGUCaGUACCGaUGGC- -5'
miRNA: 3'- -CUuGACCCGCaGUCa---GUACCGaUGGC- -5'
miRNA: 3'- -CUUGACCCGCAGUCAGUACCGAUGGC- -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 | |||||||
| 30750 | 3' | -54.7 | NC_006552.1 | + | 52396 | 0.66 | 0.760522 |
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Target: 5'- -cAUUGGGCG-CAGgcaGUGGUcacUACCGa -3' miRNA: 3'- cuUGACCCGCaGUCag-UACCG---AUGGC- -5' |
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| 30750 | 3' | -54.7 | NC_006552.1 | + | 35298 | 0.66 | 0.75024 |
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Target: 5'- -cGCaGGGCGUCcGaCAUGGaUGCCGg -3' miRNA: 3'- cuUGaCCCGCAGuCaGUACCgAUGGC- -5' |
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| 30750 | 3' | -54.7 | NC_006552.1 | + | 9728 | 0.67 | 0.708033 |
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Target: 5'- -cGCUGGcGCGauucaUCAG-CAUGGC-GCCGg -3' miRNA: 3'- cuUGACC-CGC-----AGUCaGUACCGaUGGC- -5' |
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| 30750 | 3' | -54.7 | NC_006552.1 | + | 37828 | 0.68 | 0.642717 |
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Target: 5'- cGAuCUGGGCGcCGGccugCAUGGC-ACUGa -3' miRNA: 3'- -CUuGACCCGCaGUCa---GUACCGaUGGC- -5' |
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| 30750 | 3' | -54.7 | NC_006552.1 | + | 38670 | 1.08 | 0.001629 |
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Target: 5'- gGAACUGGGCGUCAGUCAUGGCUACCGc -3' miRNA: 3'- -CUUGACCCGCAGUCAGUACCGAUGGC- -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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