miRNA: 3'- -UUACAGCGCGAAUAGCUCAUGGCCGU- -5'
miRNA: 3'- uuaCAGCGCGAauaGCU--CAUGGCCGu -5'
miRNA: 3'- uuacAGCGCGAAUa--GCU-------------CAUGGCCGu -5'
miRNA: 3'- uUACAGCGCGa----AUAGCUc-AUGGCCGu -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 | |||||||
| 1275 | 5' | -52.5 | NC_001317.1 | + | 1106 | 1.06 | 0.001195 |
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Target: 5'- gAAUGUCGCGCUUAUCGAGUACCGGCAc -3' miRNA: 3'- -UUACAGCGCGAAUAGCUCAUGGCCGU- -5' |
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| 1275 | 5' | -52.5 | NC_001317.1 | + | 5090 | 0.7 | 0.429481 |
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Target: 5'- --gGUCGUGCUgg-CGAugGUGCCGGUc -3' miRNA: 3'- uuaCAGCGCGAauaGCU--CAUGGCCGu -5' |
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| 1275 | 5' | -52.5 | NC_001317.1 | + | 9443 | 0.66 | 0.643537 |
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Target: 5'- ---uUCGCGCUUAaugCGGccuuucuugcuccGUACCGGCu -3' miRNA: 3'- uuacAGCGCGAAUa--GCU-------------CAUGGCCGu -5' |
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| 1275 | 5' | -52.5 | NC_001317.1 | + | 27121 | 0.66 | 0.668359 |
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Target: 5'- uAUGUCGCGCgccgaUAUUGAccUGCUGGCc -3' miRNA: 3'- uUACAGCGCGa----AUAGCUc-AUGGCCGu -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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