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miRNA: 3'- uGUUGc----UUCGUGGUAaUGaUCGCCAc -5'
miRNA: 3'- uGUUGCUUCGUGguaAUGAU--CGCCAC- -5'
miRNA: 3'- -UGUUGCuuCGUGGuaAUGAUCGCcAC- -5'
miRNA: 3'- -UGUUGCUUcGUG-GUAAUGAUC----------GCCAC- -5'
miRNA: 3'- -UGUUGCUUCGUGGUAAUGAUCGCCAC- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 22494 | 3' | -49.2 | NC_005069.1 | + | 19958 | 0.66 | 0.919424 |
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Target: 5'- cCAACaucaaAGGCACCAUgACgGGCGGUa -3' miRNA: 3'- uGUUGc----UUCGUGGUAaUGaUCGCCAc -5' |
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| 22494 | 3' | -49.2 | NC_005069.1 | + | 20129 | 0.68 | 0.875033 |
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Target: 5'- uCAAUGAAGUGCg--UACUAacGCGGUGg -3' miRNA: 3'- uGUUGCUUCGUGguaAUGAU--CGCCAC- -5' |
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| 22494 | 3' | -49.2 | NC_005069.1 | + | 18318 | 0.7 | 0.768707 |
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Target: 5'- uACAGCGguGCGCC--UGCUGGCG-UGg -3' miRNA: 3'- -UGUUGCuuCGUGGuaAUGAUCGCcAC- -5' |
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| 22494 | 3' | -49.2 | NC_005069.1 | + | 41867 | 0.71 | 0.712969 |
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Target: 5'- aACAACGGAaCACuCAUUGCUAGagcgugaauaCGGUGg -3' miRNA: 3'- -UGUUGCUUcGUG-GUAAUGAUC----------GCCAC- -5' |
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| 22494 | 3' | -49.2 | NC_005069.1 | + | 8866 | 1.1 | 0.002637 |
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Target: 5'- gACAACGAAGCACCAUUACUAGCGGUGg -3' miRNA: 3'- -UGUUGCUUCGUGGUAAUGAUCGCCAC- -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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