| T. dimidiata | T. infestans | T. pallidipennis | |||
---|---|---|---|---|---|---|
Raw sequencing | ||||||
Raw reads | 358,962 | Â | 559,962 | Â | 626,401 | Â |
Filtered reads (PRINTSEQ) | 237,226 | 66.1% | 347,620 | 62.1% | 421,667 | 67.3% |
Number of bases (Mbps) | 112.8 | Â | 164.6 | Â | 202.6 | Â |
Assembly | ||||||
Aligned reads | 173,525 | 73.3% | 161,674 | 46.6% | 353,083 | 83.8% |
Aligned bases (Mbps) | 82.3 | 73.1% | 74.2 | 45.1% | 167.2 | 82.6% |
Assembled reads | 140,289 | 59.3% | 124,306 | 35.8% | 291,051 | 69.1% |
Partially assembled reads | 33,138 | 14.0% | 37,334 | 10.8% | 61,847 | 14.7% |
Singletons | 56,397 | 23.8% | 174,467 | 50.3% | 54,964 | 13.1% |
Isogroups | 4847 | Â | 3904 | Â | 5148 | Â |
Average contig count | 1.6 | Â | 1.7 | Â | 1.8 | Â |
Average isotig count | 1.3 | Â | 1.2 | Â | 1.3 | Â |
Largest isotig count | 15 | Â | 30 | Â | 18 | Â |
Number of isotigs | 6212 | Â | 4856 | Â | 6476 | Â |
Average contig count | 1.6 | Â | 1.5 | Â | 1.5 | Â |
Largest contig count | 7 | Â | 9 | Â | 9 | Â |
Isotigs with one contig | 3824 | Â | 3232 | Â | 4169 | Â |
Number of bases (Mbps) | 5.2 | Â | 4.1 | Â | 5.8 | Â |
Average isotig size | 840 | Â | 841 | Â | 893 | Â |
N50 isotig size | 880 | Â | 871 | Â | 921 | Â |
Largest isotig size | 6814 | Â | 3682 | Â | 4465 | Â |
Q40 plus bases (Mbps) | 3.5 | 95.8% | 2.9 | 95.9% | 4.0 | 95.4% |
< Q39 bases (Mbps) | 0.2 | 4.2% | 0.1 | 4.1% | 0.2 | 4.6% |
full_dataset | ||||||
Total sequences | 29,024 | Â | 35,629 | Â | 31,175 | Â |
Contigs/isotigs | 6217 | 21% | 4886 | 14% | 6530 | 21% |
Singletons | 22,807 | 79% | 30,743 | 86% | 24,645 | 79% |
Total bases (Mbps): | 16.9 | Â | 20.9 | Â | 18.2 | Â |
% G + C | 33.73 | ± 5.48% | 35 | ± 6.12% | 33.7 | ± 5.75% |
nr_dataset (1 isotig per isogroup) | ||||||
Total sequences | 27,652 | Â | 34,646 | Â | 29,789 | Â |
Contigs/isotigs (isotig_dataset) | 4845 | 18% | 3903 | 11% | 5144 | 17% |
Singletons | 22,807 | 82% | 30,743 | 89% | 24,645 | 83% |
Total bases (Mbps): | 15.8 | Â | 20.1 | Â | 17.1 | Â |