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Fig. 4 | Plant Methods

Fig. 4

From: Comparative Subsequence Sets Analysis (CoSSA) is a robust approach to identify haplotype specific SNPs; mapping and pedigree analysis of a potato wart disease resistance gene Sen3

Fig. 4

Assessment of the CoSSA minimum required sequencing depth. a Total R-bulk specific k-mers, b R-bulk specific k-mers inherited from Kuba (resistance specific k-mers) and c R-bulk specific k-mers inherited from Ludmilla mapped to the potato reference genome using the full sequencing depth (~ 16 ×/haploid) (red), a depth of 10 ×/haploid (green) and a depth of 5 ×/haploid (yellow). d Signal to noise ratio (SNR) of the different peaks (Sen3 and Ludmilla_chr9) for the different sequencing depths in the case the parents are not sequenced, e SNR of Sen3 for the different sequencing depths when the parents are sequenced and f SNR of Ludmilla_chr9 for the different sequencing depths when the parents are sequenced

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