AdapterRemoval

Program #

Date	2024-08-20 13:34:48
Command	./adapterremoval3 --in-file1 SRR651031_1.fastq.gz --in-file2 SRR651031_2.fastq.gz --out-prefix example --merge --min-complexity 0.3 --min-mean-quality 20 --threads 8
Version	v3.0.0-alpha2
Runtime	31.0 seconds

Input #

	Summary	File 1	File 2
#Reads	49.4 M	24.7 M	24.7 M
#Bases	4.45 G	2.22 G	2.22 G
Read length	90 bp	90 bp	90 bp
Q20	96.6 %	97.3 %	95.8 %
Q30	91.0 %	92.0 %	90.1 %
GC	46.6 %	46.7 %	46.6 %
N	0.1 %	0.0 %	0.1 %

Base composition statistics/plots are based on 4.94 M (10.0%) of input reads sampled during execution.

Output #

	Passed*	File 1	File 2	Merged	Singleton	Discarded*
#Reads	36.8 M	12.2 M	12.2 M	11.7 M	604 K	801 K
#Bases	3.81 G	1.09 G	1.07 G	1.60 G	52.3 M	65.8 M
Read length	103.6 bp	88.8 bp	87.7 bp	136.7 bp	86.6 bp	82.1 bp
Q20	98.5 %	98.7 %	97.9 %	98.9 %	97.5 %	97.6 %
Q30	93.7 %	93.4 %	91.6 %	95.4 %	90.6 %	91.7 %
GC	46.6 %	47.0 %	46.9 %	46.2 %	45.9 %	40.3 %
N	0.0 %	0.0 %	0.0 %	0.0 %	0.0 %	0.0 %

Base composition statistics/plots are based on 3.68 M (7.6%) of output reads sampled during execution.

* The Passed column includes all read types except for Discarded reads.

Process summary #

Stage	Step		Bases	(%)	Reads	(%)	Mean Bases
Input	Raw reads	-	4.45 G	100.0	49.4 M	100.0	90.0
Processing	Adapters	-	4.92 M	0.1	442 K	0.9	11.1
	Merging	-	493 M	11.1	23.7 M	48.0	20.8
	Low quality bases	-	73.7 M	1.7	3.33 M	6.7	22.1
Filtering	Short reads	-	397 K	0.0	86.1 K	0.2	4.6
	Mean quality	-	49.0 K	0.0	1.25 K	0.0	39.1
	Low complexity reads	-	65.3 M	1.5	886 K	1.8	73.7
Output	Filtered reads	-	3.81 G	85.7	48.4 M	98.0	78.6

3 of 7 processing steps enabled, 3 of 5 filtering steps enabled. Numbers of reads are given in terms of input reads, meaning that a merged read counts for two. For Processing and Filtering, the numbers of bases specify how many were lost during each step.

Position quality distribution #

Nucleotide content #

Quality score distribution #

GC Content #

Insert-size distribution #

Position quality distribution #

Nucleotide content #

Quality score distribution #

GC Content #