Table 1.

Location of insertion tags and deletion events at the insertion site

Isolate	Chromosome location	Sequence at the 5′ end of the insertion	Supercontig sequence deletion*	Sequence at the 3′ end of the insertion	Plasmid insertion site (bp)
DAF139	1	TAACCC † TAACCC TAACCC TAACCC A	1 - 503,655	GTCCAT GATACG ATGACC TTTAAC T	503,656
DAF140	1	CACATT ATAGA CTGCTA ACCTGC C	CAGGTACTGTAT	GCAGTT ACGTAG ACTGCT GAACTA A	9,177,055 - 9,177,068
DAF141	4	Not identified	1 - 182,475	CTTGGG GAAAGG ATCAGA GCGTGA G	182,476
TP11.1	4	TTCTTC TGGCGT TTGGCC TACAAC A	TCAT	GGTCAG CATAAG CTGGCC CCACAG C	1,519,105 -1,519,110

^*where the deletion is large, bp positions are given.

^†telomere sequence TAACCC given in italics.

For three of the strains the plasmid insert positions were established by mapping to the plasmid and subsequent mapping of mate reads to the reference genome. Whereas for DAF139 de novo assembly was necessary to identify the sequence at the 5′ end of the insertion due to an incomplete reference sequence in this part of the F. graminearum genome. The 5′-flanking insertion sequence was not identified for DAF141 using either approach.