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Fig. 5 | BMC Genomics

Fig. 5

From: Using short read sequencing to characterise balanced reciprocal translocations in pigs

Fig. 5

Three types of breakpoints observed during visual inspection of the aligned reads using IGV. Grey reads are normal reads. Colored reads are reads of discordant pairs (mate maps to another chromosome). Green (A), red (T), blue (C) and orange/brown (G) bases show mismatched bases from split reads. a Possible RT breakends showing normal reads of the intact chromosome as well as discordant read pairs and split reads from the affected chromosomes. b Non RT event due to a repetitive element, showing only discordant and split reads, good reads from the intact chromosome are lacking. c Non RT event due to repetitive element, showing forward and reversed discordant read pairs in same area

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