SUMMARISING RUN PARAMETERS
==========================
Input filename: L78-Saccharomyces_paradoxus-GC+CG.end1.36mers.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.4.4
Cutadapt version: 1.15
Quality Phred score cutoff: 20
Quality encoding type selected: ASCII+33
Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected)
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
All sequences will be trimmed by 1 bp on their 3' end to avoid problems with invalid paired-end alignments with Bowtie 1
Output file will be GZIP compressed


This is cutadapt 1.15 with Python 2.7.14+
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC L78-Saccharomyces_paradoxus-GC+CG.end1.36mers.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 200.74 s (23 us/read; 2.66 M reads/minute).

=== Summary ===

Total reads processed:               8,886,861
Reads with adapters:                 4,962,263 (55.8%)
Reads written (passing filters):     8,886,861 (100.0%)

Total basepairs processed:   319,926,996 bp
Quality-trimmed:               3,210,851 bp (1.0%)
Total written (filtered):    292,834,953 bp (91.5%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 4962263 times.

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

Bases preceding removed adapters:
  A: 58.2%
  C: 12.9%
  G: 1.7%
  T: 27.3%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	3491671	2221715.2	0	3491671
2	131593	555428.8	0	131593
3	75398	138857.2	0	75398
4	61850	34714.3	0	61850
5	51294	8678.6	0	51294
6	48586	2169.6	0	48586
7	46208	542.4	0	46208
8	45664	135.6	0	45664
9	48293	33.9	0	48000 293
10	60843	8.5	1	52405 8438
11	44016	2.1	1	35014 9002
12	52878	0.5	1	44143 8735
13	62793	0.1	1	52292 10501
14	43084	0.1	1	34382 8702
15	63999	0.1	1	52742 11257
16	40819	0.1	1	32699 8120
17	56978	0.1	1	46712 10266
18	56364	0.1	1	46871 9493
19	54764	0.1	1	45356 9408
20	56140	0.1	1	46413 9727
21	56535	0.1	1	47058 9477
22	66421	0.1	1	56961 9460
23	54932	0.1	1	46625 8307
24	49225	0.1	1	42101 7124
25	30563	0.1	1	26230 4333
26	17847	0.1	1	15020 2827
27	13474	0.1	1	11024 2450
28	15364	0.1	1	11821 3543
29	20792	0.1	1	14425 6367
30	18843	0.1	1	10466 8377
31	12833	0.1	1	4723 8110
32	9030	0.1	1	1770 7260
33	3095	0.1	1	87 3008
34	54	0.1	1	0 54
35	12	0.1	1	1 11
36	8	0.1	1	2 6


RUN STATISTICS FOR INPUT FILE: L78-Saccharomyces_paradoxus-GC+CG.end1.36mers.fastq.gz
=============================================
8886861 sequences processed in total