Table 1

Sequencing and coverage statistics for all paired-read libraries
Library name* Sequenced pairs Non-duplicate pairs (%) Unique, consistently mapped pairs (%) Median insert size (bp) Physical coverage (x-fold) 5 M reads coverage (x-fold) PCR cycles ** Relative complexity *** inconsistent pairs forming clusters inconsistent inter-chromosomal pairs forming clusters
PE 160 M 151 M (95%) 131 M (87%) 166 8.5 0.34 5 >131 M 9.5% 2.0%
3 kb 17.7 M 16.3 M (92%) 15.2 M (93%) 3,208 50 6 14 4.6 M 24.0% 3.2%
5 kb_a 11.9 M 6.0 M (51%) 5.5 M (92%) 5,696 11 10.1 18 4.7 M 46.5% 3.7%
5 kb_b 16.7 M 14.7 M (88%) 14.0 M (95%) 5,811 28 10.1 13 >16.7 M 47.5% 4.6%
8 kb_a 20.8 M 8.6 M (41%) 7.8 M (91%) 8,293 25 16.2 14 5.7 M 58.4% 6.9%
8 kb_b 11.8 M 11.2 M (95%) 10.6 M (95%) 8,160 34 16.2 13 >11.8 M 50.6% 5.5%
15 kb_a 31.7 M 1.7 M (5%) 1.0 M (60%) 14,561 6 30.3 21 0.6 M 60.8% 7.6%
15 kb_b 11.6 M 1.6 M (14%) 1.2 M (73%) 13,556 7 30.3 21 0.7 M 23.2% 3.2%
20 kb 13.3 M 6.7 M (51%) 5.9 M (87%) 19,375 48 40.5 14 4.9 M 41.8% 4.7%
25 kb 56.9 M 2.3 M (4%) 1.1 M (49%) 25,871 11 50.6 17 0.7 M 51.9% 5.4%
TOTAL 352.4 M 220.1 M (62%) 193.3 M (88%) 228.5

* The _b samples are retrieved from a replicate experiment using an independent DNA isolate from the same animal.

** Number of PCR cycles required to retrieve sufficient library molecules in the final adapter-mediated PCR.

*** Complexity is defined as minimal sequencing depth (in million clones) at which over half of the pairs are clonal.

van Heesch et al.

van Heesch et al. BMC Genomics 2013 14:257   doi:10.1186/1471-2164-14-257

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