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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 18017 | 3' | -55.1 | NC_004665.1 | + | 20965 | 1.15 | 0.000218 |
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Target: 5'- cGGUCUGCGUCCUGAAGCUGCUGGUGCg -3' miRNA: 3'- -CCAGACGCAGGACUUCGACGACCACG- -5' |
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| 18017 | 3' | -55.1 | NC_004665.1 | + | 11281 | 0.71 | 0.337065 |
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Target: 5'- cGGUCUGCGUCaaCUGAGugacaccaucaucGC-GCUGGaGCg -3' miRNA: 3'- -CCAGACGCAG--GACUU-------------CGaCGACCaCG- -5' |
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| 18017 | 3' | -55.1 | NC_004665.1 | + | 32689 | 0.69 | 0.439783 |
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Target: 5'- aGGUCUucuaCGUUCgcu-GUUGCUGGUGCc -3' miRNA: 3'- -CCAGAc---GCAGGacuuCGACGACCACG- -5' |
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| 18017 | 3' | -55.1 | NC_004665.1 | + | 17037 | 0.68 | 0.480935 |
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Target: 5'- aGGUCgcugGCGUagccUCUGGuGGcCUGCUGGgugGCa -3' miRNA: 3'- -CCAGa---CGCA----GGACU-UC-GACGACCa--CG- -5' |
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| 18017 | 3' | -55.1 | NC_004665.1 | + | 14138 | 0.66 | 0.623628 |
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Target: 5'- -cUCUGCGuugaacuUCCUGcuccAGuCUGCUGGcGCa -3' miRNA: 3'- ccAGACGC-------AGGACu---UC-GACGACCaCG- -5' |
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| 18017 | 3' | -55.1 | NC_004665.1 | + | 25300 | 0.66 | 0.602045 |
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Target: 5'- uGGUCgcaGUGgacCCgUGGAGCUGCUcaGUGCc -3' miRNA: 3'- -CCAGa--CGCa--GG-ACUUCGACGAc-CACG- -5' |
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| 18017 | 3' | -55.1 | NC_004665.1 | + | 25428 | 0.66 | 0.624766 |
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Target: 5'- cGG-CUGUcUUUUGgcGCUGCUcGGUGUa -3' miRNA: 3'- -CCaGACGcAGGACuuCGACGA-CCACG- -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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