SUMMARISING RUN PARAMETERS
==========================
Input filename: L77-Saccharomyces_paradoxus-GC_only.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 L77-Saccharomyces_paradoxus-GC_only.end1.36mers.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 142.67 s (22 us/read; 2.75 M reads/minute).

=== Summary ===

Total reads processed:               6,527,676
Reads with adapters:                 3,599,213 (55.1%)
Reads written (passing filters):     6,527,676 (100.0%)

Total basepairs processed:   234,996,336 bp
Quality-trimmed:               2,362,331 bp (1.0%)
Total written (filtered):    216,682,713 bp (92.2%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 3599213 times.

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

Bases preceding removed adapters:
  A: 57.5%
  C: 14.2%
  G: 1.3%
  T: 27.0%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	2629146	1631919.0	0	2629146
2	92169	407979.8	0	92169
3	51685	101994.9	0	51685
4	41492	25498.7	0	41492
5	33342	6374.7	0	33342
6	31815	1593.7	0	31815
7	30273	398.4	0	30273
8	29953	99.6	0	29953
9	31057	24.9	0	30834 223
10	40036	6.2	1	34419 5617
11	28981	1.6	1	23119 5862
12	35378	0.4	1	29485 5893
13	39873	0.1	1	32999 6874
14	30340	0.1	1	24202 6138
15	40466	0.1	1	33293 7173
16	27115	0.1	1	21609 5506
17	37011	0.1	1	30221 6790
18	36365	0.1	1	30104 6261
19	35697	0.1	1	29706 5991
20	36179	0.1	1	30080 6099
21	36979	0.1	1	30782 6197
22	43582	0.1	1	37357 6225
23	36115	0.1	1	30499 5616
24	31752	0.1	1	27111 4641
25	20317	0.1	1	17332 2985
26	11775	0.1	1	9865 1910
27	9003	0.1	1	7323 1680
28	10555	0.1	1	7970 2585
29	12755	0.1	1	8593 4162
30	12674	0.1	1	7129 5545
31	8156	0.1	1	3250 4906
32	5673	0.1	1	1292 4381
33	1453	0.1	1	64 1389
34	44	0.1	1	3 41
35	5	0.1	1	0 5
36	2	0.1	1	1 1


RUN STATISTICS FOR INPUT FILE: L77-Saccharomyces_paradoxus-GC_only.end1.36mers.fastq.gz
=============================================
6527676 sequences processed in total