
SUMMARISING RUN PARAMETERS
==========================
Input filename: SRR3192396_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 SRR3192396_1.fastq.gz
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 2200.70 s (21 us/read; 2.87 M reads/minute).

=== Summary ===

Total reads processed:             105,089,150
Reads with adapters:                31,907,642 (30.4%)
Reads written (passing filters):   105,089,150 (100.0%)

Total basepairs processed: 10,614,004,150 bp
Quality-trimmed:             223,928,038 bp (2.1%)
Total written (filtered):  10,345,268,814 bp (97.5%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 31907642 times.

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

Bases preceding removed adapters:
  A: 29.0%
  C: 30.8%
  G: 18.8%
  T: 21.4%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	22534133	26272287.5	0	22534133
2	7424483	6568071.9	0	7424483
3	1447916	1642018.0	0	1447916
4	343385	410504.5	0	343385
5	88652	102626.1	0	88652
6	13787	25656.5	0	13787
7	3613	6414.1	0	3613
8	2961	1603.5	0	2961
9	3515	400.9	0	2662 853
10	4242	100.2	1	2597 1645
11	3413	25.1	1	2440 973
12	2534	6.3	1	2396 138
13	2448	1.6	1	2395 53
14	2629	1.6	1	2583 46
15	2103	1.6	1	2054 49
16	1982	1.6	1	1930 52
17	1694	1.6	1	1620 74
18	1618	1.6	1	1568 50
19	895	1.6	1	861 34
20	1097	1.6	1	1054 43
21	873	1.6	1	848 25
22	864	1.6	1	826 38
23	1038	1.6	1	974 64
24	918	1.6	1	857 61
25	747	1.6	1	723 24
26	628	1.6	1	590 38
27	789	1.6	1	743 46
28	793	1.6	1	749 44
29	881	1.6	1	840 41
30	878	1.6	1	834 44
31	848	1.6	1	785 63
32	774	1.6	1	731 43
33	1003	1.6	1	965 38
34	769	1.6	1	733 36
35	993	1.6	1	934 59
36	688	1.6	1	646 42
37	891	1.6	1	843 48
38	470	1.6	1	432 38
39	572	1.6	1	541 31
40	416	1.6	1	370 46
41	505	1.6	1	477 28
42	222	1.6	1	176 46
43	196	1.6	1	173 23
44	138	1.6	1	94 44
45	216	1.6	1	185 31
46	193	1.6	1	157 36
47	130	1.6	1	88 42
48	153	1.6	1	101 52
49	126	1.6	1	95 31
50	87	1.6	1	69 18
51	81	1.6	1	49 32
52	118	1.6	1	73 45
53	79	1.6	1	51 28
54	47	1.6	1	17 30
55	60	1.6	1	19 41
56	71	1.6	1	46 25
57	55	1.6	1	29 26
58	63	1.6	1	33 30
59	42	1.6	1	28 14
60	50	1.6	1	12 38
61	49	1.6	1	26 23
62	74	1.6	1	39 35
63	74	1.6	1	52 22
64	58	1.6	1	41 17
65	74	1.6	1	40 34
66	65	1.6	1	34 31
67	83	1.6	1	41 42
68	49	1.6	1	33 16
69	92	1.6	1	62 30
70	105	1.6	1	52 53
71	63	1.6	1	39 24
72	50	1.6	1	16 34
73	37	1.6	1	5 32
74	37	1.6	1	4 33
75	27	1.6	1	3 24
76	32	1.6	1	2 30
77	20	1.6	1	0 20
78	52	1.6	1	0 52
79	29	1.6	1	1 28
80	38	1.6	1	0 38
81	59	1.6	1	2 57
82	59	1.6	1	0 59
83	40	1.6	1	0 40
84	35	1.6	1	0 35
85	33	1.6	1	0 33
86	56	1.6	1	0 56
87	66	1.6	1	0 66
88	39	1.6	1	0 39
89	51	1.6	1	0 51
90	54	1.6	1	0 54
91	30	1.6	1	0 30
92	40	1.6	1	0 40
93	14	1.6	1	0 14
94	133	1.6	1	1 132
95	45	1.6	1	0 45
96	31	1.6	1	0 31
97	56	1.6	1	0 56
98	30	1.6	1	0 30
99	9	1.6	1	0 9
100	21	1.6	1	0 21
101	68	1.6	1	0 68


RUN STATISTICS FOR INPUT FILE: SRR3192396_1.fastq.gz
=============================================
105089150 sequences processed in total

