Table 4. Locations of Hi-C centromere calls and RNA-seq mapping based prediction for P. pastoris CBS7435 centromeres.

Varoquaux et al. used the chromatin conformation capture assay, Hi-C, to predict the centromere regions of P. pastoris GS115 to within a 20 kbp region. Based on RNA-seq data mapping to the reference sequence presented here we were able observe a drastic drop in signal strength in the regions below, indicating a low transcriptional status in those regions. In those regions we identified near perfect inverted repeats. The reorientation of chr1, chr3 and chr4 described above resulted in a differing value when compared to GS115. The slightly differing value between GS115 and CBS7435 on chromosome 4 arises from the shorter length of GS115 chr4.

	GS115 2009		CBS7435 2016 predicted centromeres		ORF-free space [bp]	Inverted Repeats [bp]
chr	Hi-C	predicted	before reorientation	after reorientation		individual repeats	total sequence spanned	Identity [%]
1	1408908 ± 20000	1400423..1409375	1487825..1493796	1401559..1407530	8,955	1991	5354	99
2	1556231 ± 20000	1542915..1551466	1545323..1551977	844482..851136	10,413	2699	6655	99
3	2226823 ± 20000	2202870..2211602	2222793..2228973	34486..40666	8,734	2649	6183	99
4	1719280 ± 20000	1701016..1712046	1762920..1769148	58794..65022	9976	2559	6229	99