
SUMMARISING RUN PARAMETERS
==========================
Input filename: SRR3192397_1.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.4.1
Cutadapt version: 1.9.1
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
Running FastQC on the data once trimming has completed
Output file will be GZIP compressed


This is cutadapt 1.9.1 with Python 2.7.6
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC SRR3192397_1.fastq.gz
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 2021.96 s (22 us/read; 2.74 M reads/minute).

=== Summary ===

Total reads processed:              92,494,632
Reads with adapters:                29,457,331 (31.8%)
Reads written (passing filters):    92,494,632 (100.0%)

Total basepairs processed: 9,341,957,832 bp
Quality-trimmed:             155,135,737 bp (1.7%)
Total written (filtered):  9,145,059,528 bp (97.9%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 29457331 times.

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

Bases preceding removed adapters:
  A: 30.4%
  C: 30.4%
  G: 17.5%
  T: 21.8%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	20977783	23123658.0	0	20977783
2	6579269	5780914.5	0	6579269
3	1366985	1445228.6	0	1366985
4	338775	361307.2	0	338775
5	87544	90326.8	0	87544
6	15846	22581.7	0	15846
7	6972	5645.4	0	6972
8	6831	1411.4	0	6831
9	6466	352.8	0	5640 826
10	7319	88.2	1	5638 1681
11	6080	22.1	1	5119 961
12	5774	5.5	1	5601 173
13	5766	1.4	1	5695 71
14	5830	1.4	1	5748 82
15	4397	1.4	1	4326 71
16	4689	1.4	1	4618 71
17	4171	1.4	1	4090 81
18	3641	1.4	1	3570 71
19	1455	1.4	1	1411 44
20	1583	1.4	1	1547 36
21	1093	1.4	1	1055 38
22	958	1.4	1	910 48
23	765	1.4	1	712 53
24	581	1.4	1	545 36
25	549	1.4	1	512 37
26	444	1.4	1	405 39
27	632	1.4	1	602 30
28	622	1.4	1	592 30
29	722	1.4	1	662 60
30	724	1.4	1	680 44
31	438	1.4	1	368 70
32	579	1.4	1	541 38
33	937	1.4	1	912 25
34	860	1.4	1	804 56
35	1644	1.4	1	1590 54
36	678	1.4	1	641 37
37	1182	1.4	1	1119 63
38	472	1.4	1	426 46
39	486	1.4	1	453 33
40	327	1.4	1	283 44
41	384	1.4	1	348 36
42	241	1.4	1	218 23
43	272	1.4	1	255 17
44	208	1.4	1	164 44
45	328	1.4	1	285 43
46	279	1.4	1	240 39
47	161	1.4	1	112 49
48	172	1.4	1	137 35
49	160	1.4	1	132 28
50	105	1.4	1	81 24
51	142	1.4	1	119 23
52	168	1.4	1	122 46
53	161	1.4	1	113 48
54	94	1.4	1	64 30
55	65	1.4	1	33 32
56	92	1.4	1	80 12
57	93	1.4	1	62 31
58	91	1.4	1	69 22
59	168	1.4	1	140 28
60	83	1.4	1	53 30
61	62	1.4	1	29 33
62	60	1.4	1	28 32
63	50	1.4	1	30 20
64	61	1.4	1	33 28
65	37	1.4	1	10 27
66	54	1.4	1	15 39
67	51	1.4	1	21 30
68	63	1.4	1	22 41
69	43	1.4	1	22 21
70	102	1.4	1	46 56
71	104	1.4	1	27 77
72	50	1.4	1	24 26
73	34	1.4	1	4 30
74	33	1.4	1	2 31
75	34	1.4	1	0 34
76	21	1.4	1	0 21
77	27	1.4	1	1 26
78	36	1.4	1	0 36
79	36	1.4	1	0 36
80	47	1.4	1	0 47
81	46	1.4	1	0 46
82	41	1.4	1	0 41
83	53	1.4	1	0 53
84	35	1.4	1	0 35
85	29	1.4	1	0 29
86	67	1.4	1	0 67
87	20	1.4	1	0 20
88	37	1.4	1	0 37
89	60	1.4	1	0 60
90	79	1.4	1	1 78
91	56	1.4	1	0 56
92	46	1.4	1	0 46
93	28	1.4	1	0 28
94	80	1.4	1	0 80
95	60	1.4	1	0 60
96	22	1.4	1	1 21
97	52	1.4	1	0 52
98	39	1.4	1	0 39
99	23	1.4	1	0 23
100	18	1.4	1	0 18
101	99	1.4	1	1 98


RUN STATISTICS FOR INPUT FILE: SRR3192397_1.fastq.gz
=============================================
92494632 sequences processed in total

