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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 | |||||||
| 2510 | 3' | -55.2 | NC_001454.1 | + | 13228 | 0.67 | 0.455909 |
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Target: 5'- -aUGAGaCGUGCggUGGgAGU-GCCGCCg -3' miRNA: 3'- cgACUCgGUACG--ACCgUUAuCGGCGG- -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 20153 | 0.67 | 0.487625 |
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Target: 5'- uCUGAGUCAgGCuUGGUAc-GGCCGUCu -3' miRNA: 3'- cGACUCGGUaCG-ACCGUuaUCGGCGG- -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 20451 | 0.67 | 0.476934 |
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Target: 5'- cGCUgGAGCCcauugGCUGGCuucuuauGUGGUgGCg -3' miRNA: 3'- -CGA-CUCGGua---CGACCGu------UAUCGgCGg -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 8640 | 0.68 | 0.405649 |
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Target: 5'- aGUUGAG-CGUGgUGGCAAUGuGCuCGCa -3' miRNA: 3'- -CGACUCgGUACgACCGUUAU-CG-GCGg -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 11054 | 0.69 | 0.350155 |
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Target: 5'- gGCUaAG-CAUGCUGuaauUAAUGGCCGCCa -3' miRNA: 3'- -CGAcUCgGUACGACc---GUUAUCGGCGG- -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 17114 | 0.73 | 0.22343 |
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Target: 5'- uGCaGAGCCAccggagGCUGGCGGcuauuuuccAGCCGCUg -3' miRNA: 3'- -CGaCUCGGUa-----CGACCGUUa--------UCGGCGG- -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 16524 | 0.82 | 0.049779 |
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Target: 5'- aGgaGAGgCAUgGCgGGCAGUGGCCGCCg -3' miRNA: 3'- -CgaCUCgGUA-CGaCCGUUAUCGGCGG- -5' |
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| 2510 | 3' | -55.2 | NC_001454.1 | + | 15254 | 1.14 | 0.00018 |
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Target: 5'- gGCUGAGCCAUGCUGGCAAUAGCCGCCg -3' miRNA: 3'- -CGACUCGGUACGACCGUUAUCGGCGG- -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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