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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12370 | 5' | -52.3 | NC_003324.1 | + | 23355 | 0.69 | 0.708955 |
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Target: 5'- -gCGGCGGGCguca---UUGuCCCACAg -3' miRNA: 3'- caGCCGCCCGaaacaaaAAC-GGGUGU- -5' |
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| 12370 | 5' | -52.3 | NC_003324.1 | + | 32762 | 0.72 | 0.518352 |
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Target: 5'- -gUGGCGGGCUUUGUgacggGCCUuauGCu -3' miRNA: 3'- caGCCGCCCGAAACAaaaa-CGGG---UGu -5' |
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| 12370 | 5' | -52.3 | NC_003324.1 | + | 32811 | 1.08 | 0.002015 |
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Target: 5'- gGUCGGCGGGCUUUGUUUUUGCCCACAc -3' miRNA: 3'- -CAGCCGCCCGAAACAAAAACGGGUGU- -5' |
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| 12370 | 5' | -52.3 | NC_003324.1 | + | 43210 | 0.66 | 0.858369 |
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Target: 5'- cGUCGaggacggcaaccuGCGGGaCUUUGgcauuaUGCCCGCu -3' miRNA: 3'- -CAGC-------------CGCCC-GAAACaaaa--ACGGGUGu -5' |
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| 12370 | 5' | -52.3 | NC_003324.1 | + | 55125 | 0.66 | 0.850583 |
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Target: 5'- -aCGGCauGGGCUUcGUcgaagUUGCCgGCAa -3' miRNA: 3'- caGCCG--CCCGAAaCAaa---AACGGgUGU- -5' |
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| 12370 | 5' | -52.3 | NC_003324.1 | + | 55911 | 0.66 | 0.823241 |
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Target: 5'- gGUCGuGUGGGCUacUUGgaugaUGCCgACAc -3' miRNA: 3'- -CAGC-CGCCCGA--AACaaaa-ACGGgUGU- -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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