Table 1 Sequencing and coverage statistics for all paired-read libraries
From: Improving mammalian genome scaffolding using large insert mate-pair next-generation sequencing
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%) | Â | 228.5 | Â | Â | Â | Â | Â |