Analysis of repetitive DNA distribution patterns in the Tribolium castaneum genome

Table 4 Analysis of the Tribolium repeat library produced by RepeatScout

Repeat class	Total repeat family length (kb)	Number of repeat families	Percentage of RepeatScout library	Percentage of genome*	Repeat family length range (bp)	Repeat family average length (bp)	Repeat family copy number range	Repeat family average copy number	Repeat family GC content range (%)	Repeat family average GC content (%)
HighA^†	26.1	31	1.9	7.1	160-1,771	841	323-4,337	1,368	23.05-33.75	28.37
Mid^‡	220.3	304	15.6	7.4	67-4,881	725	11-1,746	204	13.46-47.51	30.19
Low^§	738.2	3,237	52.3	4.7	51-4,520	228	3-215	14	12.28-71.15	33.61
HighB^¶	4.6	5	0.3	1.6	982-1,277	921	432-3,531	1,306	26.58-31.32	29.67
360 bp satellite^¥	0.4	1	0.2	0.3	-	-	1,122	-	-	26.31
Transposable elements^#	406.2	896	28.9	4.4	51-11,289	453.3	3-2,471	27	15.28-65.93	38.59

*RepeatMasker was used to determine the percent of the genome occupied by each repeat class. ^†High repetitive A, 31 repeat sequences that each masked >0.1% of the genome. ^‡Middle repetitive, 304 repeat sequences that each masked >0.01% and <0.1% of the genome. ^§Low repetitive, 3,237 repeat sequences that each masked <0.01% of the genome. ^¶High repetitive B, repeat sequences that each masked >0.1% of the genome, but show a different distribution pattern to the HighA repeat sequences. ^¥360 bp satellite was removed from the HighA class for separate analysis. ^#Transposable elements were removed from the HighA, Mid, and Low repetitive classes for separate analysis.

ISSN: 1474-760X