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Interpretation
Kristy Horan edited this page Oct 11, 2019
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Meningotype results are presented in a tabular format
| MDU sample ID | Item code | N. meningitidis capsule group | PorA VR type | FetA VR type |
|---|---|---|---|---|
| 20XX-XXXX | C | P1.5,2 | F3-3 | |
| 20XX-XXXY | B | P1.5,2 | F3-3 | |
| 20XX-XXXZ | - | P1.5,2 | F3-3 |
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N. meningitidis capsule group defines the capsule group.
meningotypedetects capsule groups A, B, C, W, X, Y and W/Y - PorA VR type represents the amino acid sequence for variable regions VR1 and VR2 and each assigned an allele as per the pubMLST (https://pubmlst.org/neisseria/) database. The PorA VRs are defined as a particular combination of VR1 and VR2.
- FetA VR type is given an allele prefixed with the letter F, for example, F1-5 or F3-6
| Sequence quality parameter/result | Expected result |
|---|---|
| Sequence data - depth | 40X at a minimum |
| K-mer Identification | Species identification should be Neisseria meningitidis |
| Serogroup | Serogroup will not be detected if isolate is not encapsulated. However,some serotypes have high GC content and as a result do not sequence well across the capsule gene. |