
SUMMARISING RUN PARAMETERS
==========================
Input filename: /data/local/buyar/pigx/pigx_rnaseq/tests/sample_data/reads/HBR_Rep1.read1.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.4.3
Cutadapt version: 1.15
Quality Phred score cutoff: 20
Quality encoding type selected: ASCII+33
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
Output file will be GZIP compressed


This is cutadapt 1.15 with Python 3.5.4
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC /data/local/buyar/pigx/pigx_rnaseq/tests/sample_data/reads/HBR_Rep1.read1.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 0.02 s (41 us/read; 1.47 M reads/minute).

=== Summary ===

Total reads processed:                     605
Reads with adapters:                       207 (34.2%)
Reads written (passing filters):           605 (100.0%)

Total basepairs processed:        60,500 bp
Quality-trimmed:                     343 bp (0.6%)
Total written (filtered):         59,867 bp (99.0%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 207 times.

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

Bases preceding removed adapters:
  A: 24.6%
  C: 35.3%
  G: 26.6%
  T: 13.5%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	139	151.2	0	139
2	55	37.8	0	55
3	11	9.5	0	11
4	2	2.4	0	2


RUN STATISTICS FOR INPUT FILE: /data/local/buyar/pigx/pigx_rnaseq/tests/sample_data/reads/HBR_Rep1.read1.fastq.gz
=============================================
605 sequences processed in total

