SUMMARISING RUN PARAMETERS
==========================
Input filename: zr3644_3_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 smallRNA: 0, count Nextera: 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_3_1.fastq.gz
Processing single-end reads on 8 cores ...
Finished in 145.076 s (3.728 µs/read; 16.09 M reads/minute).

=== Summary ===

Total reads processed:              38,913,609
Reads with adapters:                 8,596,076 (22.1%)
Reads written (passing filters):    38,913,609 (100.0%)

Total basepairs processed: 4,106,629,190 bp
Quality-trimmed:                 779,555 bp (0.0%)
Total written (filtered):  4,096,453,419 bp (99.8%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 8596076 times

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

Bases preceding removed adapters:
  A: 47.8%
  C: 11.4%
  G: 6.1%
  T: 34.8%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	8251398	9728402.2	0	8251398
2	8707	2432100.6	0	8707
3	217430	608025.1	0	217430
4	118021	152006.3	0	118021
5	435	38001.6	0	435
6	4	9500.4	0	4
7	4	2375.1	0	4
10	44	37.1	1	1 43
11	33	9.3	1	0 33

RUN STATISTICS FOR INPUT FILE: zr3644_3_1.fastq.gz
=============================================
38913609 sequences processed in total