SUMMARISING RUN PARAMETERS
==========================
Input filename: zr3644_14_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 Illumina: 0, count smallRNA: 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_14_1.fastq.gz
Processing single-end reads on 8 cores ...
Finished in 141.303 s (3.888 µs/read; 15.43 M reads/minute).

=== Summary ===

Total reads processed:              36,340,861
Reads with adapters:                 8,019,114 (22.1%)
Reads written (passing filters):    36,340,861 (100.0%)

Total basepairs processed: 3,821,288,863 bp
Quality-trimmed:                 851,722 bp (0.0%)
Total written (filtered):  3,811,665,759 bp (99.7%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 8019114 times

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

Bases preceding removed adapters:
  A: 47.5%
  C: 11.4%
  G: 6.2%
  T: 34.9%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	7690103	9085215.2	0	7690103
2	15186	2271303.8	0	15186
3	205495	567826.0	0	205495
4	107642	141956.5	0	107642
5	598	35489.1	0	598
6	11	8872.3	0	11
7	5	2218.1	0	5
8	1	554.5	0	1
9	5	138.6	0	0 5
10	39	34.7	1	0 39
11	28	8.7	1	0 28
12	1	2.2	1	0 1

RUN STATISTICS FOR INPUT FILE: zr3644_14_1.fastq.gz
=============================================
36340861 sequences processed in total