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fringe","volume":"187","author":"A Brown","year":"2007","journal-title":"Med J Aust"},{"key":"ref11","unstructured":"Wild RSL, Anderson P. Ampe Akelyernemane Meke Mekarle &quot;Little Children are Sacred&quot;. Darwin: Northern Territory Board of Inquiry into the Protection of Aboriginal Children from Sexual Abuse, Northern Territory Government; 2007. available from <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/www.inquirysaac.nt.gov.au\/pdf\/bipacsa_final_report.pdf\" xlink:type=\"simple\">http:\/\/www.inquirysaac.nt.gov.au\/pdf\/bipacsa_final_report.pdf<\/ext-link>"},{"key":"ref12","unstructured":"Rogstad K, Thomas A, Williams O, Forster G, Munday P, Robinson A, et al. United Kingdom National Guideline on the Management of Sexually Transmitted Infections and Related Conditions in Children and Young People\u20142010. Available from: <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/www.bashh.org\/documents\/2674.pdf\" xlink:type=\"simple\">http:\/\/www.bashh.org\/documents\/2674.pdf<\/ext-link>."},{"issue":"Suppl 3","key":"ref13","doi-asserted-by":"crossref","first-page":"S103","DOI":"10.1093\/cid\/cir700","article-title":"Sexual assault and abuse of children","volume":"53","author":"MR Hammerschlag","year":"2011","journal-title":"Clin Infect Dis"},{"issue":"RR-03","key":"ref14","first-page":"1","article-title":"Sexually transmitted diseases treatment guidelines, 2015","volume":"64","author":"KA Workowski","year":"2015","journal-title":"MMWR Recommendations and reports: Morbidity and mortality weekly report Recommendations and reports \/ Centers for Disease Control"},{"key":"ref15","article-title":"What does <italic>Chlamydia trachomatis<\/italic> detection in a urogenital specimen from a young child mean?","author":"PM Giffard","year":"2016","journal-title":"Sex Transm Infect"},{"issue":"1","key":"ref16","doi-asserted-by":"crossref","first-page":"e009624","DOI":"10.1136\/bmjopen-2015-009624","article-title":"<italic>Chlamydia trachomatis<\/italic> genotypes in a cross-sectional study of urogenital samples from remote Northern and Central Australia","volume":"6","author":"PM Giffard","year":"2016","journal-title":"BMJ Open"},{"key":"ref17","first-page":"555","article-title":"Proceedings of the Seventh International Symposium on Human Chlamydial Infections","author":"VL Asche","year":"1990"},{"key":"ref18","first-page":"237","article-title":"Proceedings of the Sixth International Symposium on Human Chlamydial Infections","author":"FP Douglas","year":"1986"},{"issue":"11","key":"ref19","doi-asserted-by":"crossref","first-page":"3418","DOI":"10.1128\/JCM.01709-12","article-title":"Microbiological applications of high-resolution melting analysis","volume":"50","author":"SY 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trachomatis<\/italic> strains in women in Mopani district, South Africa","volume":"91","author":"B Versteeg","year":"2015","journal-title":"Sex Transm Infect"},{"issue":"9","key":"ref35","doi-asserted-by":"crossref","first-page":"1385","DOI":"10.3201\/eid1509.090272","article-title":"Predicting phenotype and emerging strains among <italic>Chlamydia trachomatis<\/italic> infections","volume":"15","author":"D Dean","year":"2009","journal-title":"Emerg Infect Dis"},{"issue":"7","key":"ref36","doi-asserted-by":"crossref","first-page":"644","DOI":"10.1111\/j.1469-0691.2008.02011.x","article-title":"Highly discriminative genotyping of <italic>Chlamydia trachomatis<\/italic> using omp1 and a set of variable number tandem repeats","volume":"14","author":"LN Pedersen","year":"2008","journal-title":"Clin Microbiol Infect"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"68","DOI":"10.3389\/fcimb.2012.00068","article-title":"Genotyping markers used for multi locus VNTR analysis with 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