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. 2013 May 28;2(2):104–111. doi: 10.1530/EC-13-0009

Table 2.

Quality scores of whole exome sequencing

Tumour id# No. of reads Average read length Whole exome, coding sequences Coding sequence PCC susceptibility genes Total no. of variants; non-synonymous and splice site
Pre-trim Post-trim 10× coverage (%) Non-synonymous variants Small INDELs Mean coverage 1× (%) 10× (%) 100× (%) Low stringency High stringency
1 126×106 86×106 100 92 15 240 230 93 98 94 35 13 8
2 129×106 112×106 100 95 14 527 222 127 99 95 57 8 5
3 243×106 206×106 100 94 17 051 252 198 99 96 77 10 5

No., number; Trim, removal of duplicate and low-quality reads; PCC susceptibility genes, SDHA, SDHB, SDHC, SDHD, SDHAF2, VHL, HIF2A, RET, NF1, TMEM127 and MAX; PCC, pheochromocytoma.