SUMMARISING RUN PARAMETERS
==========================
Input filename: zr3644_10_1.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.6.10
Cutadapt version: 4.9
Python version: could not detect
Number of cores used for trimming: 8
Quality Phred score cutoff: 20
Quality encoding type selected: ASCII+33
Unable to auto-detect most prominent adapter from the first specified file (count Nextera: 0, count smallRNA: 0, count Illumina: 0)
Defaulting to Illumina universal adapter ( AGATCGGAAGAGC ). Specify -a SEQUENCE to avoid this behavior).
Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; default (inconclusive auto-detection))
Maximum trimming error rate: 0.1 (default)
Minimum required adapter overlap (stringency): 1 bp
Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
Running FastQC on the data once trimming has completed
Output file will be GZIP compressed


This is cutadapt 4.9 with Python 3.12.8
Command line parameters: -j 8 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC zr3644_10_1.fastq.gz
Processing single-end reads on 8 cores ...
Finished in 206.608 s (3.981 µs/read; 15.07 M reads/minute).

=== Summary ===

Total reads processed:              51,902,712
Reads with adapters:                11,436,089 (22.0%)
Reads written (passing filters):    51,902,712 (100.0%)

Total basepairs processed: 5,451,935,960 bp
Quality-trimmed:               1,078,073 bp (0.0%)
Total written (filtered):  5,438,332,874 bp (99.8%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 11436089 times

Minimum overlap: 1
No. of allowed errors:
1-9 bp: 0; 10-13 bp: 1

Bases preceding removed adapters:
  A: 47.7%
  C: 11.4%
  G: 6.3%
  T: 34.7%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	10966447	12975678.0	0	10966447
2	11574	3243919.5	0	11574
3	298152	810979.9	0	298152
4	159196	202745.0	0	159196
5	599	50686.2	0	599
6	13	12671.6	0	13
7	4	3167.9	0	4
8	1	792.0	0	1
9	4	198.0	0	0 4
10	59	49.5	1	0 59
11	37	12.4	1	0 37
12	3	3.1	1	0 3

RUN STATISTICS FOR INPUT FILE: zr3644_10_1.fastq.gz
=============================================
51902712 sequences processed in total