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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 | |||||||
| 29117 | 3' | -45.3 | NC_006146.1 | + | 34720 | 0.66 | 0.99999 |
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Target: 5'- cCCCCcUAUCCUAccUCGAG-GUg- -3' miRNA: 3'- -GGGGcAUAGGAU--AGCUCaCAgu -5' |
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| 29117 | 3' | -45.3 | NC_006146.1 | + | 138550 | 0.66 | 0.99999 |
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Target: 5'- cCCCCcUAUCCUAccUCGAG-GUg- -3' miRNA: 3'- -GGGGcAUAGGAU--AGCUCaCAgu -5' |
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| 29117 | 3' | -45.3 | NC_006146.1 | + | 57663 | 0.66 | 0.99999 |
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Target: 5'- gCCCC-UGUCUUAU-GGGUGUCc -3' miRNA: 3'- -GGGGcAUAGGAUAgCUCACAGu -5' |
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| 29117 | 3' | -45.3 | NC_006146.1 | + | 4659 | 0.67 | 0.999875 |
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Target: 5'- aCCCCGccGUCCUGggcCGGGUGggCGa -3' miRNA: 3'- -GGGGCa-UAGGAUa--GCUCACa-GU- -5' |
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| 29117 | 3' | -45.3 | NC_006146.1 | + | 19621 | 0.7 | 0.997164 |
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Target: 5'- gCCCUGg--CCUucgauAUCGAGUGUCu -3' miRNA: 3'- -GGGGCauaGGA-----UAGCUCACAGu -5' |
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| 29117 | 3' | -45.3 | NC_006146.1 | + | 141206 | 0.78 | 0.882857 |
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Target: 5'- cCUCCGUAUCCUAUCaAGUGUg- -3' miRNA: 3'- -GGGGCAUAGGAUAGcUCACAgu -5' |
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| 29117 | 3' | -45.3 | NC_006146.1 | + | 29662 | 1.06 | 0.042357 |
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Target: 5'- cCCCCGUAUCCUAUCGAGUGUCAc -3' miRNA: 3'- -GGGGCAUAGGAUAGCUCACAGU- -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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