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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 28207 | 5' | -50.7 | NC_005891.1 | + | 1409 | 0.66 | 0.850146 |
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Target: 5'- gGGCAGGUAAGGAUAUcggggCGuuGCa--- -3' miRNA: 3'- -CCGUUCGUUUCUGUAa----GCggCGgauc -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 11107 | 0.67 | 0.791558 |
|
Target: 5'- cGGCAgcGGCAAcgGGGCGUUCGgCGgCg-- -3' miRNA: 3'- -CCGU--UCGUU--UCUGUAAGCgGCgGauc -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 31821 | 0.67 | 0.791558 |
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Target: 5'- uGCucGCAcaaaaAAGGCGUUCGCUGCggAGa -3' miRNA: 3'- cCGuuCGU-----UUCUGUAAGCGGCGgaUC- -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 34936 | 0.68 | 0.726231 |
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Target: 5'- cGGCAGGUGAgcgcuugauuGGAgAUUCGCUGCUc-- -3' miRNA: 3'- -CCGUUCGUU----------UCUgUAAGCGGCGGauc -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 23597 | 0.68 | 0.748579 |
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Target: 5'- cGCAguAGC-GAGACug-CGCCGCCa-- -3' miRNA: 3'- cCGU--UCGuUUCUGuaaGCGGCGGauc -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 17353 | 0.69 | 0.666412 |
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Target: 5'- aGGCGAGCGGAGACuaaCGaagucacaacaaCGCCUGu -3' miRNA: 3'- -CCGUUCGUUUCUGuaaGCg-----------GCGGAUc -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 30549 | 0.69 | 0.668742 |
|
Target: 5'- ----cGuCAAAGGCGUUgGCCGUCUGGg -3' miRNA: 3'- ccguuC-GUUUCUGUAAgCGGCGGAUC- -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 27342 | 0.71 | 0.540892 |
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Target: 5'- aGGCGGGUccAGAGGCAaaagccguuaUUGCCGCCUAc -3' miRNA: 3'- -CCGUUCG--UUUCUGUa---------AGCGGCGGAUc -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 33783 | 0.74 | 0.383024 |
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Target: 5'- cGGCGAGCAuuGACuccUCGCUGCagUAGg -3' miRNA: 3'- -CCGUUCGUuuCUGua-AGCGGCGg-AUC- -5' |
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| 28207 | 5' | -50.7 | NC_005891.1 | + | 34727 | 1.11 | 0.00138 |
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Target: 5'- uGGCAAGCAAAGACAUUCGCCGCCUAGc -3' miRNA: 3'- -CCGUUCGUUUCUGUAAGCGGCGGAUC- -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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