You can use this answer to obtain a list of your entity classes:
    List<ClassLoader> classLoadersList = new LinkedList<ClassLoader>();
    classLoadersList.add(ClasspathHelper.contextClassLoader());
    classLoadersList.add(ClasspathHelper.staticClassLoader());
    reflections = new Reflections(
            new ConfigurationBuilder()
                    .setScanners(new SubTypesScanner(false),
                            new ResourcesScanner())
                    .setUrls(
                            ClasspathHelper.forClassLoader(classLoadersList
                                    .toArray(new ClassLoader[0])))
                    .filterInputsBy(
                            new FilterBuilder().include(FilterBuilder
                                    .prefix("me.business.model"))));
And get your DDL with:
    ClassPathResource cpr = new ClassPathResource("db/schema.sql");
    schemaContent = new String(FileCopyUtils.copyToByteArray(cpr
            .getInputStream())).toLowerCase();
And get the sequence for each class witH;
private String getSequenceName(Class<?> clazz) {
    for (Field f : clazz.getDeclaredFields()) {
        if (f.isAnnotationPresent(SequenceGenerator.class)) {
            SequenceGenerator sg = f.getAnnotation(SequenceGenerator.class);
            return sg.sequenceName();
        }
    }
    return null;
}
The test is simple:
    Set<Class<?>> entities = reflections.getSubTypesOf(Object.class);
    for (Class<?> clazz : entities) {
        String name = getSequenceName(clazz);
        if (name == null)
            continue;
        if (!schemaContent.contains(name.toLowerCase())) {
            fail("The clazz " + clazz.getSimpleName()
                    + " has a sequence called: " + name
                    + " and it doesn't exits");
        }
    }
You can see it here
If you want to see if it works, change the sequence name in one of your entitites and run the test.