miRNA: 3'- uaCGAC-GCCUAG--UAGa--CG--CCGugCGG- -5'
miRNA: 3'- uaCGaCGC---------CU---AGUa---GACGCCGUGCGG- -5'
miRNA: 3'- uaCGACGCC----UAGUAGacGcCGUGCGG- -5'
miRNA: 3'- uaCG-ACGCCUAGuaGACGCCGUGCgG- -5'
miRNA: 3'- -UACGACGCCUAGUAGACGCCGUGCGG- -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 | |||||||
| 1302 | 5' | -57.4 | NC_001331.1 | + | 2772 | 0.67 | 0.100843 |
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Target: 5'- -cGCUGcCGGGUCcgAUUgcgGCggGGCugGCCu -3' miRNA: 3'- uaCGAC-GCCUAG--UAGa--CG--CCGugCGG- -5' |
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| 1302 | 5' | -57.4 | NC_001331.1 | + | 2855 | 0.68 | 0.079907 |
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Target: 5'- -cGCcGCGacccaugauGAuguUCAgcgcCUGCGGCACGCCg -3' miRNA: 3'- uaCGaCGC---------CU---AGUa---GACGCCGUGCGG- -5' |
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| 1302 | 5' | -57.4 | NC_001331.1 | + | 4849 | 0.69 | 0.06988 |
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Target: 5'- -cGCUGCGGccagGUCAUC--CaGCACGCCc -3' miRNA: 3'- uaCGACGCC----UAGUAGacGcCGUGCGG- -5' |
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| 1302 | 5' | -57.4 | NC_001331.1 | + | 4517 | 0.72 | 0.037941 |
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Target: 5'- -gGCgUGCGGAUC--CUGCGGUGCGgCg -3' miRNA: 3'- uaCG-ACGCCUAGuaGACGCCGUGCgG- -5' |
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| 1302 | 5' | -57.4 | NC_001331.1 | + | 2770 | 1.1 | 0.000018 |
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Target: 5'- cAUGCUGCGGAUCAUCUGCGGCACGCCa -3' miRNA: 3'- -UACGACGCCUAGUAGACGCCGUGCGG- -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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