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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 | |||||||
| 26696 | 3' | -52.1 | NC_005808.1 | + | 31369 | 0.67 | 0.723525 |
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Target: 5'- ---cGCuaguGGGCGUgGGCggGAACGUGg -3' miRNA: 3'- uuuaCGu---CCCGCAaCUGgaCUUGCAC- -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 41173 | 0.67 | 0.712219 |
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Target: 5'- --uUGCcaucuuGGGCGUgGAUgUGGACGUGc -3' miRNA: 3'- uuuACGu-----CCCGCAaCUGgACUUGCAC- -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 38928 | 0.67 | 0.693951 |
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Target: 5'- ---aGUGGGGCGUUGugcaggcguccgguuGCUugUGGACGUGg -3' miRNA: 3'- uuuaCGUCCCGCAAC---------------UGG--ACUUGCAC- -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 13471 | 0.68 | 0.666245 |
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Target: 5'- cGGUGUcGGGCa-UGACCUGGGCGa- -3' miRNA: 3'- uUUACGuCCCGcaACUGGACUUGCac -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 36715 | 0.71 | 0.462337 |
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Target: 5'- ---cGguGGGCGUUGAUCgacgaGAACGUc -3' miRNA: 3'- uuuaCguCCCGCAACUGGa----CUUGCAc -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 27026 | 0.73 | 0.376602 |
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Target: 5'- ---cGCAGcgcgucgucacugacGGCGccaUUGACCUGGACGUGg -3' miRNA: 3'- uuuaCGUC---------------CCGC---AACUGGACUUGCAC- -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 19825 | 0.73 | 0.36735 |
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Target: 5'- ---cGCAGGGCGUUGACCaaucggcccucacccUGGGCa-- -3' miRNA: 3'- uuuaCGUCCCGCAACUGG---------------ACUUGcac -5' |
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| 26696 | 3' | -52.1 | NC_005808.1 | + | 21170 | 1.07 | 0.001609 |
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Target: 5'- gAAAUGCAGGGCGUUGACCUGAACGUGg -3' miRNA: 3'- -UUUACGUCCCGCAACUGGACUUGCAC- -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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