Table 2: Illumina DNA sequencing metrics, before and after preprocessing.

From: The draft genome sequence of cork oak

Library Type Insert Size (bp) Illumina Sequencer Read Length Number libraries Original Number of Reads Reads Kept After Pre-processing Percentage reads kept
Paired-End 170 HiSeq 2000 100 3 983,306,498 833,615,836 84.8
  300 HiSeq X Ten 150 6 5,648,976,124 4,637,949,574 82.1
  500 HiSeq 2000 100 3 924,063,928 750,835,264 81.3
  800 HiSeq 2000 100 3 622,761,676 467,933,516 75.1
Mate-Pair 2000 HiSeq 2000 49 6 1,419,111,502 1,166,743,086 82.2
  5000 HiSeq 2000 49 3 501,967,462 404,751,694 80.6
  10000 HiSeq 4000 49 3 202,568,340 124,339,922 61.4
  20000 HiSeq 4000 49 3 258,232,918 157,943,444 61.2
  1. When necessary, the reads were trimmed, using Sickle’s sliding window approach, to a minimum length of 120, 80 and 40 nucleotides, for the PE150, PE100 and MP libraries, respectively. The minimum quality over the set window size for each library type was 20.