Clonal complex designation

Sequence types are grouped into clonal complexes by their similarity to a central allelic profile (genotype). These central genotypes are identified by a number of heuristic means, including BURST and split decomposition, along with feedback from public health laboratories and epidemiologists.

For the Neisseria database, once a central genotype has been identified, clonal complexes are defined as including any ST that matches the central genotype at four or more loci unless it more closely matches another central genotype. In a tie-break, the complex that was defined earlier wins, and the order of complexes below reflects this.

STs are assigned to clonal complexes automatically by a Perl script that runs against the database each evening.

Currently defined complexes

Central ST Complex name
11 ST-11 complex/ET-37 complex
8 ST-8 complex/Cluster A4
41 ST-41/44 complex/Lineage 3
44 ST-41/44 complex/Lineage 3
32 ST-32 complex/ET-5 complex
1 ST-1 complex/subgroup I/II
4 ST-4 complex/subgroup IV
5 ST-5 complex/subgroup III
106 ST-106 complex
116 ST-116 complex
18 ST-18 complex
198 ST-198 complex
23 ST-23 complex/Cluster A3
231 ST-231 complex
254 ST-254 complex
292 ST-292 complex
334 ST-334 complex
35 ST-35 complex
364 ST-364 complex
269 ST-269 complex
376 ST-376 complex
53 ST-53 complex
549 ST-549 complex
92 ST-92 complex
22 ST-22 complex
162 ST-162 complex
213 ST-213 complex
595 ST-595 complex (lactamica)
613 ST-613 complex (lactamica)
624 ST-624 complex (lactamica)
640 ST-640 complex (lactamica)
1494 ST-1494 complex (lactamica)
1540 ST-1540 complex (lactamica)
461 ST-461 complex
226 ST-226 complex
60 ST-60 complex
174 ST-174 complex
103 ST-103 complex
167 ST-167 complex
750 ST-750 complex
1157 ST-1157 complex
865 ST-865 complex
4821 ST-4821 complex
37 ST-37 complex
175 ST-175 complex
1117 ST-1117 complex
1136 ST-1136 complex
212 ST-212 complex
178 ST-178 complex
282 ST-282 complex
181 ST-181 complex
4240 ST-4240/6688 complex
6688 ST-4240/6688 complex
192 ST-192 complex
10217 ST-10217 complex
1572 ST-1572 complex
2057 ST-2057 complex
3439 ST-3439 complex
9316 ST-9316 complex