Table 5 Alignment metrics for Illumina MiSeq and Ion Torrent PGM sequencing runs
From: Analysis of the genetic diversity of influenza A viruses using next-generation DNA sequencing
Illumina MiSeq | Â | Â | Â | Â | |
|---|---|---|---|---|---|
PR8 S1 | Â | Â | Â | Â | Â |
Segment | Length | Mapped reads | Minimum coverage | Maximum coverage | Average coverage |
PB2 | 2381 | 159869 | 12 | 20525 | 15057 |
PB1 | 2381 | 126244 | 6 | 16513 | 11960 |
PA | 2273 | 107490 | 7 | 14883 | 10533 |
HA | 1815 | 213169 | 6 | 58709 | 25756 |
NP | 1605 | 149599 | 9 | 29927 | 19883 |
NA | 1453 | 139858 | 5 | 29353 | 21256 |
M | 1067 | 180592 | 13 | 56656 | 37788 |
NS | 930 | 140785 | 4 | 47293 | 31651 |
PR8 S2 | Â | Â | Â | Â | Â |
Segment | Length | Mapped reads | Minimum coverage | Maximum coverage | Average coverage |
PB2 | 2381 | 163969 | 14 | 20266 | 14923 |
PB1 | 2381 | 128791 | 9 | 16043 | 11750 |
PA | 2273 | 110954 | 5 | 14733 | 10486 |
HA | 1815 | 222513 | 5 | 57511 | 25860 |
NP | 1605 | 150831 | 11 | 29497 | 19330 |
NA | 1453 | 135597 | 14 | 27006 | 19834 |
M | 1067 | 177520 | 13 | 54233 | 35854 |
NS | 930 | 136505 | 12 | 44068 | 29591 |
Ion torrent PGM | Â | Â | Â | Â | Â |
PR8 S1 | Â | Â | Â | Â | Â |
Segment | Length | Mapped reads | Minimum coverage | Maximum coverage | Average coverage |
PB2 | 2381 | 93676 | 6396 | 11399 | 8765 |
PB1 | 2381 | 72187 | 4016 | 10132 | 6471 |
PA | 2273 | 70492 | 4735 | 9315 | 6940 |
HA | 1815 | 148242 | 4613 | 39585 | 17544 |
NP | 1605 | 94509 | 8518 | 19617 | 12324 |
NA | 1453 | 77561 | 7918 | 14959 | 11904 |
M | 1067 | 119301 | 15170 | 31854 | 24331 |
NS | 930 | 112041 | 16425 | 33280 | 25428 |
PR8 S2 | Â | Â | Â | Â | Â |
Segment | Length | Mapped reads | Minimum coverage | Maximum coverage | Average coverage |
PB2 | 2381 | 84783 | 5612 | 10775 | 7947 |
PB1 | 2381 | 65635 | 3442 | 9253 | 5900 |
PA | 2273 | 63994 | 4529 | 8607 | 6290 |
HA | 1815 | 139240 | 4438 | 37662 | 16517 |
NP | 1605 | 88966 | 8283 | 18590 | 11625 |
NA | 1453 | 74318 | 7629 | 14494 | 11453 |
M | 1067 | 115512 | 15395 | 30397 | 23553 |
NS | 930 | 109661 | 16936 | 32481 | 24950 |