################################################################################# Genome Stats (quast) Assembly genome genome_broken # contigs (>= 0 bp) 207559 - # contigs (>= 1000 bp) 207559 167064 # contigs (>= 5000 bp) 62864 14980 # contigs (>= 10000 bp) 32219 1666 # contigs (>= 25000 bp) 8775 2 # contigs (>= 50000 bp) 2199 0 Total length (>= 0 bp) 1282139926 - Total length (>= 1000 bp) 1282139926 414900613 Total length (>= 5000 bp) 970393902 108862952 Total length (>= 10000 bp) 753965988 20732886 Total length (>= 25000 bp) 393973570 59699 Total length (>= 50000 bp) 171574798 0 # contigs 207559 348046 Largest contig 314858 31696 Total length 1282139926 539581851 GC (%) 39.50 38.55 N50 13474 2155 N75 5165 1054 L50 22467 65641 L75 61135 157114 # N's per 100 kbp 28110.61 5.97 ################################################################################# Genome Stats (softmasked, scaffolds >= 3kbps -- quast) Assembly genome.masked.filtered genome.masked.filtered_broken # contigs (>= 0 bp) 94758 - # contigs (>= 1000 bp) 94758 154526 # contigs (>= 5000 bp) 62864 14980 # contigs (>= 10000 bp) 32219 1666 # contigs (>= 25000 bp) 8775 2 # contigs (>= 50000 bp) 2199 0 Total length (>= 0 bp) 1092475184 - Total length (>= 1000 bp) 1092475184 397529100 Total length (>= 5000 bp) 970393902 108862952 Total length (>= 10000 bp) 753965988 20732886 Total length (>= 25000 bp) 393973570 59699 Total length (>= 50000 bp) 171574798 0 # contigs 94758 310337 Largest contig 314858 31696 Total length 1092475184 505299580 GC (%) 39.40 38.57 N50 17088 2345 N75 8318 1122 L50 16208 58074 L75 39400 137007 # N's per 100 kbp 26193.56 5.98 ################################################################################# gFACs (annotated gtf) STATS: Number of genes: 16805 Number of monoexonic genes: 3976 Number of multiexonic genes: 12829 Number of positive strand genes: 8373 Monoexonic: 2044 Multiexonic: 6329 Number of negative strand genes: 8432 Monoexonic: 1932 Multiexonic: 6500 Average overall gene size: 5419.609 Median overall gene size: 2609 Average overall CDS size: 1093.434 Median overall CDS size: 851 Average overall exon size: 241.715 Median overall exon size: 132 Average size of monoexonic genes: 2544.106 Median size of monoexonic genes: 831 Largest monoexonic gene: 70555 Smallest monoexonic gene: 255 Average size of multiexonic genes: 6310.793 Median size of multiexonic genes: 3458 Largest multiexonic gene: 120553 Smallest multiexonic gene: 261 Average size of multiexonic CDS: 1293.431 Median size of multiexonic CDS: 1050 Largest multiexonic CDS: 14211 Smallest multiexonic CDS: 46 Average size of multiexonic exons: 230.324 Median size of multiexonic exons: 129 Average size of multiexonic introns: 6104.742 Median size of multiexonic introns: 519 Average number of exons per multiexonic gene: 5.616 Median number of exons per multiexonic gene: 4 Largest multiexonic exon: 8028 Smallest multiexonic exon: 20 Most exons in one gene: 39 Average number of introns per multiexonic gene: 4.616 Median number of introns per multiexonic gene: 3 Average size of multiexonic genes: 6310.793 Median size of multiexonic genes: 3458 Largest multiexonic gene: 120553 Smallest multiexonic gene: 261 Average size of multiexonic CDS: 1293.431 Median size of multiexonic CDS: 1050 Largest multiexonic CDS: 14211 Smallest multiexonic CDS: 46 Average size of multiexonic exons: 230.324 Median size of multiexonic exons: 129 Average size of multiexonic introns: 6104.742 Median size of multiexonic introns: 519 Average number of exons per multiexonic gene: 5.616 Median number of exons per multiexonic gene: 4 Largest multiexonic exon: 8028 Smallest multiexonic exon: 20 Most exons in one gene: 39 Average number of introns per multiexonic gene: 4.616 Median number of introns per multiexonic gene: 3 Largest intron: 300188 Smallest intron: 0 ################################################################################# gFACs (annotated with partial gene models) STATS: STATS: Number of genes: 18220 Number of monoexonic genes: 3191 Number of multiexonic genes: 15029 Number of positive strand genes: 9062 Monoexonic: 1572 Multiexonic: 7490 Number of negative strand genes: 9158 Monoexonic: 1619 Multiexonic: 7539 Average overall gene size: 5702.791 Median overall gene size: 2789 Average overall CDS size: 1002.757 Median overall CDS size: 787 Average overall exon size: 240.328 Median overall exon size: 132 Average size of monoexonic genes: 4786.675 Median size of monoexonic genes: 1760.5 Largest monoexonic gene: 98486 Smallest monoexonic gene: 114 Average size of multiexonic genes: 5897.304 Median size of multiexonic genes: 3022 Largest multiexonic gene: 120553 Smallest multiexonic gene: 168 Average size of multiexonic CDS: 1118.690 Median size of multiexonic CDS: 903 Largest multiexonic CDS: 11495 Smallest multiexonic CDS: 49 Average size of multiexonic exons: 230.834 Median size of multiexonic exons: 130 Average size of multiexonic introns: 3690.840 Median size of multiexonic introns: 530 Average number of exons per multiexonic gene: 4.846 Median number of exons per multiexonic gene: 3 Largest multiexonic exon: 8028 Smallest multiexonic exon: 20 Most exons in one gene: 47 Average number of introns per multiexonic gene: 3.847 Median number of introns per multiexonic gene: 2 Largest intron: 301577 Smallest intron: 0 ################################################################################# BUSCO Stats (genome) C:70.0%[S:65.8%,D:4.2%],F:7.8%,M:22.2%,n:1440 1008 Complete BUSCOs (C) 948 Complete and single-copy BUSCOs (S) 60 Complete and duplicated BUSCOs (D) 113 Fragmented BUSCOs (F) 319 Missing BUSCOs (M) 1440 Total BUSCO groups searched ################################################################################# BUSCO Stats (annotated genes (complete models)) C:66.1%[S:55.1%,D:11.0%],F:12.9%,M:21.0%,n:1440 953 Complete BUSCOs (C) 794 Complete and single-copy BUSCOs (S) 159 Complete and duplicated BUSCOs (D) 186 Fragmented BUSCOs (F) 301 Missing BUSCOs (M) 1440 Total BUSCO groups searched ################################################################################# BUSCO Stats (annotated genes (with partial gene models)) C:55.7%[S:48.3%,D:7.4%],F:10.2%,M:34.1%,n:1440 801 Complete BUSCOs (C) 695 Complete and single-copy BUSCOs (S) 106 Complete and duplicated BUSCOs (D) 147 Fragmented BUSCOs (F) 492 Missing BUSCOs (M) 1440 Total BUSCO groups searched