{"paper_id":"191dcbc4-0aad-4d66-bd2a-78ad165bee95","body_text":"Review Tool reports\nUNDERSTANDING AND CONTEXTUALIZING THE REPORTS\nReaders of these automated manuscript Review Tool reports are encouraged to use them to support them in performing their \nown assessment and ‘health check’ on a preprint prior to it completing peer review.\nHowever, these should only be used as a guide, read within the overall context of the article itself, and should never replace \nfull peer review. Please ensure you read the article fully alongside these and familiarize yourself with the tools and how they \nwork, using the links provided below.\nThese reports are published under the terms of the Creative Commons Attribution License\nITHENTICATE® REPORT\niThenticate® (https://www.ithenticate.com) checks the submitted article against an extensive database of articles from the \ninternet and scholarly publications and highlights where similar sentences or phrases have been used previously, including in \nthe author’s own published work. Each individual match is given a percentage score based on how much it overlaps with the \npreviously existing work, and an overall similarity score is given. The report generated from this are included here for \ntransparency and can be cited independently using the DOI below.\n•    FAQs: https://www.ithenticate.com/products/faqs\n•    Help pages: https://help.turnitin.com/ithenticate/ithenticate-user/ithenticate-user.htm#TheSimilarityReport\nHow to cite the iThenticate report for this article:\nFarrell D, Perets V , Gordon SV. iThenticate report for: SNiPgenie: A tool for microbial SNP site detection from whole genome \nsequencing data. Access Microbiology. 2025. https://doi.org/10.1099/acmi.0.001021.v1.1\n\nACMI-S-25-00100.pdf\nBy Damien Farrell\nWORD COUNT 2660 TIME SUBMITTED18-MAR-2025 08:19PM\nPAPER ID 115227647\n\n3\n\n\n2\n3\n5\n8\n9\n12\n13\n\n\n1\n3\n3\n4\n5\n6\n7\n\n\n1\n1\n1\n1\n11\n\n\n1\n1\n1\n1\n1\n1\n1\n\n\n\n\n4\n\n\n\n\n24%\nSIMILARITY INDEX\n1\n2\n3\n4\n5\n6\n7\n8\nACMI-S-25-00100.pdf\nORIGINALITY REPORT\nPRIMARY SOURCES\ngithub.com\nInternet\nDamien Farrell, Joseph Crispell, Stephen V. Gordon. \"\nUpdated functional annotation of the AF2122/97\nreference genome \", Cold Spring Harbor Laboratory, 2019\nCrossref Posted Content\ndmnfarrell.github.io\nInternet\nwww.frontiersin.org\nInternet\nwww.ncbi.nlm.nih.gov\nInternet\npure.uva.nl\nInternet\nBalamurugan Jagadeesan, Peter Gerner-Smidt,\nMarc W. Allard, Sébastien Leuillet et al. \"The use of\nnext generation sequencing for improving food safety:\nTranslation into practice\", Food Microbiology, 2019\nCrossref\nCatriona P. Harkins, Kerry A. Pettigrew, Katarina\nOravcová, June Gardner et al. \"The micro-evolution\n330 words — 15%\n50 words — 2%\n45 words — 2%\n25 words — 1%\n14 words — 1%\n11 words — 1%\n9 words — < 1%\n9 words — < 1%\n\n9\n10\n11\n12\n13\nEXCLUDE QUOTESOFF\nEXCLUDE BIBLIOGRAPHYON\nEXCLUDE SOURCESOFF\nEXCLUDE MATCHESOFF\nand epidemiology of Staphylococcus aureus colonization\nduring atopic eczema disease flare\", Journal of Investigative\nDermatology, 2017\nCrossref\nKilian J. Murphy, Andrew W. Byrne, Nicola Marples,\nMaria J.H. O’Hagan et al. \"Wildlife response to land-\nuse change forces encounters between zoonotic disease hosts\nand farms in agricultural landscapes\", Agriculture, Ecosystems\n& Environment, 2025\nCrossref\nMelese Yilma Zaba, Sebsib Neway, Damien Farrell,\nEva Denion et al. \"Isolation and genetic analysis of\nmycobacteria from suspect tuberculous lesions in slaughtered\ncattle from Wolaita, Ethiopia\", Microbiology Society, 2024\nCrossref Posted Content\nwww.microbiologyresearch.org\nInternet\nJennie Pryce. \"Advances in breeding of dairy\ncattle\", Burleigh Dodds Science Publishing, 2019\nPublications\nhdl.handle.net\nInternet\n8 words — < 1%\n8 words — < 1%\n8 words — < 1%\n6 words — < 1%\n6 words — < 1%","source_license":"CC-BY-4.0","license_restricted":false}