SUMMARISING RUN PARAMETERS
==========================
Input filename: zr3644_8_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 Illumina: 0, count smallRNA: 0, count Nextera: 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_8_1.fastq.gz
Processing single-end reads on 8 cores ...
Finished in 153.343 s (3.622 µs/read; 16.57 M reads/minute).

=== Summary ===

Total reads processed:              42,336,845
Reads with adapters:                 9,337,142 (22.1%)
Reads written (passing filters):    42,336,845 (100.0%)

Total basepairs processed: 4,450,426,813 bp
Quality-trimmed:                 852,156 bp (0.0%)
Total written (filtered):  4,439,358,849 bp (99.8%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 9337142 times

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

Bases preceding removed adapters:
  A: 47.7%
  C: 11.5%
  G: 6.1%
  T: 34.7%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	8958718	10584211.2	0	8958718
2	9278	2646052.8	0	9278
3	239453	661513.2	0	239453
4	128750	165378.3	0	128750
5	844	41344.6	0	844
6	16	10336.1	0	16
8	4	646.0	0	4
9	3	161.5	0	1 2
10	38	40.4	1	0 38
11	36	10.1	1	0 36
12	2	2.5	1	0 2

RUN STATISTICS FOR INPUT FILE: zr3644_8_1.fastq.gz
=============================================
42336845 sequences processed in total