```
#' @keywords internal
longest.insertion.in.sequence <- function(aln_allcolumns,
this_sequence, tf_index=1) {
# Create a mock sequence of either '-' (for sites inserted
# relative to the sequence identified by tf_index) or 'X' (all
# other sites). By inverting the notation used for deletions, we
# can reuse the function longest.indel.in.sequence() to count the
# insertions.
insert_sites <- sapply(1:ncol(aln_allcolumns), function(i)
ifelse(aln_allcolumns[tf_index, i] == "-" &
aln_allcolumns[this_sequence, i] != "-", "-", "X" ) )
longest.indel.in.sequence(seqinr::c2s(insert_sites))
}
```

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