<?php
$paged = ( get_query_var( 'paged' ) ) ? get_query_var( 'paged' ) : 1;
$args = array(
     'post_type' => 'custom_post_type_name',
     'posts_per_page' => 10,
     'paged' => $paged
);
$loop = new WP_Query( $args );
while ( $loop->have_posts() ) : $loop->the_post();
     //CPT. content
endwhile;
?>
<nav class="pagination">
     <?php
     $big = 999999999;
     echo paginate_links( array(
          'base' => str_replace( $big, '%#%', get_pagenum_link( $big ) ),
          'format' => '?paged=%#%',
          'current' => max( 1, get_query_var('paged') ),
          'total' => $loop->max_num_pages,
          'prev_text' => '&laquo;',
          'next_text' => '&raquo;'
     ) );
?>
</nav>
<?php wp_reset_postdata(); ?>

<?php
          $paged = ( get_query_var( 'paged' ) ) ? get_query_var( 'paged' ) : 1;
            $args = array(
              'posts_per_page' => 6,
              'order'          => 'ASC',
              'post_type'      => 'my_type_post',
              'paged'          => $paged
            );
            $loop = new WP_Query( $args );
          ?>
          <?php
            if( $loop->have_posts() ) {
              while( $loop->have_posts() ){
                $loop->the_post();
                ?>
                <h3><?php the_title(); ?></h3>
                // My HTML
                <?php
              }
              wp_reset_postdata();
            } 
         ?>

// И в нужно контейнере - месте размещаем nav.
<code lang="php">
       <nav class="pagination">
          <?php
            $big = 999999999;
            echo paginate_links( array(
              'base' => str_replace( $big, '%#%', get_pagenum_link( $big ) ),
              'format' => '?paged=%#%',
              'current' => max( 1, get_query_var('paged') ),
              'total' => $loop->max_num_pages,
              'prev_text' => '&laquo;',
              'next_text' => '&raquo;'
            ) );
          ?>
        </nav>
</code>