Entering edit mode
6.0 years ago
DanielC
▴
170
Dear Friends,
I ran quast to assess the quality of two contigs I assembled. I noticed that for both the contigs quast presents different "total reads": (the numbr of reads in fastq file is 2625009)
Contig1 Contig2
# contigs (>= 0 bp) 1 1
# contigs (>= 1000 bp) 1 1
# contigs (>= 5000 bp) 1 1
# contigs (>= 10000 bp) 1 1
# contigs (>= 25000 bp) 1 1
# contigs (>= 50000 bp) 1 1
Total length (>= 0 bp) 50406 88165
Total length (>= 1000 bp) 50406 88165
Total length (>= 5000 bp) 50406 88165
Total length (>= 10000 bp) 50406 88165
Total length (>= 25000 bp) 50406 88165
Total length (>= 50000 bp) 50406 88165
# contigs 1 1
Largest contig 50406 88165
Total length 50406 88165
GC (%) 45.62 38.98
N50 50406 88165
N75 50406 88165
L50 11
L75 11
# total reads 2683807 2625087
# left 0 0
# right 0 0
Mapped (%) 96.79 0.58
Properly paired (%) 0.0 0.0
Avg. coverage depth 14449 52
Coverage >= 1x (%) 100.0 100.0
# N's per 100 kbp 0.00 0.00
Could you please let me know what could be the reason here? Your comments will be highly appreciated.
Thanks, DK