Many journal publishers do analyze submitted manuscripts using the iThenticate service, including the American Physical Society (APS), IEEE, Springer-Nature, Elsevier, Public Library of Science (PLoS), and many others. The version of iThenticate that the publishers use is commonly called "CrossCheck", and is part of the publisher services that the DOI Registration Agency CrossRef offers as a value added benefit. When publishers register a DOI for a given article, they submit it for iThenticate similarity checking and also agree to add the published article to the iThenticate database. In this way, the iThenticate database of content being checked for similarity is continuously updated with new papers, proceedings, and books/book chapters.
According to a study commissioned by the international Committee on Publication Ethics (COPE), over 40% of journal editors worldwide screen manuscript submissions against the iThenticate database. They do this via the CrossCheck service - the publisher-facing version of iThenticate available from the DOI agency CrossRef. An example of a publisher policy using CrossCheck/iThenticate is Springer Nature's Plagiarism prevention with CrossCheck.
In another example, Elsevier has integrated CrossCheck and iThenticate into their editorial submission system to ensure that all manuscripts are checked. Yet, Elsevier editors understand the importance of combining the generated similarity reports with sound judgment, and it is noted that "[t]he subject knowledge of an editorial expert is vital in order to interpret the Similarity Check report and determine whether there are any grounds for concern."
iThenticate relies on an extensive and growing database of research documents from 3 sources, including premium scholarly publications, the Intenet Archive, and a global student papers database. (An updated description of these sources is available from iThenticate at https://www.ithenticate.com/content and Databases Content (PDF))
(1) CrossRef's database of journal articles, conference proceedings and books for which they have issued Digital Object Identifiers (DOIs). These research documents come from from leading scientific, technical and medical (STM) publishers who rely on CrossRef for their DOIs. As part of the agreement with CrossRef, these publishers have agreed to provide to iThenticate the full text of their documents so that the CrossRef portion of the iThenticate database continues to grow as more research is published daily around the world.
(2) Subscription content and research titles from major content providers including ProQuest, Ebsco, and other database vendors typically available through college libraries. Theses include in the ProQuest database are included in this portion, but it is important to note that an increasing number of top research universities (including Caltech, Stanford, UT Austin, Georgia Tech) no longer submit their graduate scholarship to ProQuest and are thus not included in iThenticate's similarity check.
(3) Web pages crawled by iThenticate's own search engine, with content dating back at least a decade and being updated daily.
it is important to keep in mind that iThenticate's repository is not complete -- the Similarity Report and Similarity Score reflect matches only to documents contained in iThenticate's repository.
You may wish to check the Author Guidelines for the publisher or journal of interest to see if they mention iThenticate or CrossCheck or CrossRef Similarity Check.
The publisher website may include an iThenticate badge. For example, the Copernicus Publications Plagiarism Detection website clearly indicates use of iThenticate.