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Throw a contatenation of x509 Certificates in PEM format - also called chain file - into CertSort and let it do its magic. Without any further action CertSort will print the contained certificates in an ordered manner. For clarity just the position within the chain plus issuer and subject as well as start- and enddate.
Chain-Check
Throw the chain file into CertSorts hungry maw and let it tell you, if the chain contains related certificates or even one type of connected chain.
Have a closer look
Pick the number of a contained certificate and let CertSort show you its details. You'll see basic information like issuer, subject, start- end enddate as well as all its extensions and the fact if its a root, intermediate or end certificate.
Future
That was all just a prelude. The goal is to have options for Apache and Nginx that allow you to check their certificate configuration down to the smallest detail and save yourself long searches for the problematic area in the future.
Because even if it comes as a surprise, the configcheck options of the two do not do exactly that yet.