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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 | |||||||
| 28206 | 5' | -52.4 | NC_005891.1 | + | 8509 | 0.71 | 0.454112 |
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Target: 5'- uGUCGUCUggCAGGGUGAUAuGCAAa- -3' miRNA: 3'- gCAGCGGGa-GUCCUACUGUuCGUUaa -5' |
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| 28206 | 5' | -52.4 | NC_005891.1 | + | 19266 | 0.66 | 0.726138 |
|
Target: 5'- uGUCGUaCUCAGGGUcgGACAaucGGCGAa- -3' miRNA: 3'- gCAGCGgGAGUCCUA--CUGU---UCGUUaa -5' |
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| 28206 | 5' | -52.4 | NC_005891.1 | + | 28937 | 1.05 | 0.00208 |
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Target: 5'- uCGUCGCCCUCAGGAUGACAAGCAAUUc -3' miRNA: 3'- -GCAGCGGGAGUCCUACUGUUCGUUAA- -5' |
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| 28206 | 5' | -52.4 | NC_005891.1 | + | 34758 | 0.66 | 0.759324 |
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Target: 5'- aCGUCGacaCCCUacuuaAGGAgccagacaaUGGCAAGCAAa- -3' miRNA: 3'- -GCAGC---GGGAg----UCCU---------ACUGUUCGUUaa -5' |
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| 28206 | 5' | -52.4 | NC_005891.1 | + | 35115 | 0.66 | 0.714847 |
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Target: 5'- cCGcCGCuCCUCagccugaaaaAGGcAUGACAGGCGAg- -3' miRNA: 3'- -GCaGCG-GGAG----------UCC-UACUGUUCGUUaa -5' |
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| 28206 | 5' | -52.4 | NC_005891.1 | + | 39689 | 0.67 | 0.703466 |
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Target: 5'- aGUCGCUUgaGGGcGUGACGGGCGAa- -3' miRNA: 3'- gCAGCGGGagUCC-UACUGUUCGUUaa -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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