SUMMARISING RUN PARAMETERS
==========================
Input filename: /Volumes/Serine/wd/18-04-10/zr2096_5_s1_R1.fastq
Trimming mode: paired-end
Trim Galore version: 0.4.0
Cutadapt version: 1.16
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
All Read 1 sequences will be trimmed by 15 bp from their 5' end to avoid poor qualities or biases
All Read 2 sequences will be trimmed by 15 bp from their 5' end to avoid poor qualities or biases (e.g. M-bias for BS-Seq applications)


This is cutadapt 1.16 with Python 2.7.12
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC /Volumes/Serine/wd/18-04-10/zr2096_5_s1_R1.fastq
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 817.93 s (26 us/read; 2.33 M reads/minute).

=== Summary ===

Total reads processed:              31,778,715
Reads with adapters:                11,626,318 (36.6%)
Reads written (passing filters):    31,778,715 (100.0%)

Total basepairs processed: 2,881,909,346 bp
Quality-trimmed:               9,171,799 bp (0.3%)
Total written (filtered):  2,858,698,169 bp (99.2%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 11626318 times.

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

Bases preceding removed adapters:
  A: 42.8%
  C: 13.2%
  G: 10.5%
  T: 33.5%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	10070072	7944678.8	0	10070072
2	1099130	1986169.7	0	1099130
3	285046	496542.4	0	285046
4	142993	124135.6	0	142993
5	5542	31033.9	0	5542
6	4163	7758.5	0	4163
7	2228	1939.6	0	2228
8	1001	484.9	0	1001
9	563	121.2	0	225 338
10	927	30.3	1	238 689
11	698	7.6	1	53 645
12	533	1.9	1	82 451
13	615	0.5	1	0 615
14	799	0.5	1	0 799
15	1534	0.5	1	0 1534
16	4395	0.5	1	0 4395
17	4610	0.5	1	0 4610
18	328	0.5	1	0 328
19	75	0.5	1	0 75
20	30	0.5	1	0 30
21	26	0.5	1	0 26
22	33	0.5	1	0 33
23	35	0.5	1	0 35
24	31	0.5	1	0 31
25	32	0.5	1	0 32
26	37	0.5	1	0 37
27	35	0.5	1	0 35
28	33	0.5	1	0 33
29	35	0.5	1	0 35
30	28	0.5	1	0 28
31	28	0.5	1	0 28
32	37	0.5	1	0 37
33	33	0.5	1	0 33
34	24	0.5	1	0 24
35	29	0.5	1	0 29
36	29	0.5	1	0 29
37	29	0.5	1	0 29
38	17	0.5	1	0 17
39	38	0.5	1	0 38
40	17	0.5	1	0 17
41	33	0.5	1	0 33
42	24	0.5	1	0 24
43	31	0.5	1	0 31
44	17	0.5	1	0 17
45	26	0.5	1	0 26
46	19	0.5	1	0 19
47	27	0.5	1	0 27
48	17	0.5	1	0 17
49	24	0.5	1	0 24
50	15	0.5	1	0 15
51	19	0.5	1	0 19
52	13	0.5	1	0 13
53	16	0.5	1	0 16
54	14	0.5	1	0 14
55	16	0.5	1	0 16
56	13	0.5	1	0 13
57	9	0.5	1	0 9
58	4	0.5	1	0 4
59	11	0.5	1	0 11
60	11	0.5	1	0 11
61	11	0.5	1	0 11
62	3	0.5	1	0 3
63	4	0.5	1	0 4
64	4	0.5	1	0 4
65	8	0.5	1	0 8
66	8	0.5	1	0 8
67	4	0.5	1	0 4
68	3	0.5	1	0 3
69	3	0.5	1	0 3
70	3	0.5	1	0 3
71	4	0.5	1	0 4
72	3	0.5	1	0 3
73	4	0.5	1	0 4
74	1	0.5	1	0 1
77	1	0.5	1	0 1
78	1	0.5	1	0 1
79	1	0.5	1	0 1
81	2	0.5	1	0 2
82	2	0.5	1	0 2
83	1	0.5	1	0 1


RUN STATISTICS FOR INPUT FILE: /Volumes/Serine/wd/18-04-10/zr2096_5_s1_R1.fastq
=============================================
31778715 sequences processed in total