SUMMARISING RUN PARAMETERS
==========================
Input filename: zr3644_21_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_21_1.fastq.gz
Processing single-end reads on 8 cores ...
Finished in 216.869 s (4.298 µs/read; 13.96 M reads/minute).

=== Summary ===

Total reads processed:              50,457,301
Reads with adapters:                11,212,128 (22.2%)
Reads written (passing filters):    50,457,301 (100.0%)

Total basepairs processed: 5,326,682,966 bp
Quality-trimmed:               1,172,730 bp (0.0%)
Total written (filtered):  5,313,256,612 bp (99.7%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 11212128 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: 34.7%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	10759859	12614325.2	0	10759859
2	16588	3153581.3	0	16588
3	283923	788395.3	0	283923
4	150570	197098.8	0	150570
5	1054	49274.7	0	1054
6	25	12318.7	0	25
7	2	3079.7	0	2
8	1	769.9	0	1
9	4	192.5	0	0 4
10	62	48.1	1	0 62
11	38	12.0	1	0 38
12	2	3.0	1	0 2

RUN STATISTICS FOR INPUT FILE: zr3644_21_1.fastq.gz
=============================================
50457301 sequences processed in total