
SUMMARISING RUN PARAMETERS
==========================
Input filename: SRR3192658_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 SRR3192658_1.fastq.gz
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 1951.56 s (20 us/read; 3.00 M reads/minute).

=== Summary ===

Total reads processed:              97,548,052
Reads with adapters:                28,796,974 (29.5%)
Reads written (passing filters):    97,548,052 (100.0%)

Total basepairs processed: 9,852,353,252 bp
Quality-trimmed:             176,076,813 bp (1.8%)
Total written (filtered):  9,636,205,578 bp (97.8%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 28796974 times.

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

Bases preceding removed adapters:
  A: 27.4%
  C: 36.0%
  G: 20.2%
  T: 16.4%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	20288104	24387013.0	0	20288104
2	6684234	6096753.2	0	6684234
3	1398486	1524188.3	0	1398486
4	311360	381047.1	0	311360
5	78753	95261.8	0	78753
6	15151	23815.4	0	15151
7	1911	5953.9	0	1911
8	1063	1488.5	0	1063
9	1828	372.1	0	912 916
10	2535	93.0	1	727 1808
11	2068	23.3	1	735 1333
12	810	5.8	1	677 133
13	637	1.5	1	592 45
14	599	1.5	1	563 36
15	522	1.5	1	497 25
16	483	1.5	1	451 32
17	429	1.5	1	372 57
18	307	1.5	1	256 51
19	211	1.5	1	168 43
20	235	1.5	1	218 17
21	267	1.5	1	234 33
22	214	1.5	1	177 37
23	315	1.5	1	253 62
24	264	1.5	1	239 25
25	201	1.5	1	180 21
26	206	1.5	1	169 37
27	207	1.5	1	175 32
28	220	1.5	1	191 29
29	261	1.5	1	229 32
30	191	1.5	1	169 22
31	236	1.5	1	180 56
32	181	1.5	1	143 38
33	208	1.5	1	187 21
34	164	1.5	1	124 40
35	268	1.5	1	201 67
36	173	1.5	1	144 29
37	214	1.5	1	170 44
38	116	1.5	1	87 29
39	148	1.5	1	104 44
40	83	1.5	1	65 18
41	119	1.5	1	90 29
42	60	1.5	1	47 13
43	59	1.5	1	24 35
44	75	1.5	1	18 57
45	65	1.5	1	21 44
46	54	1.5	1	22 32
47	92	1.5	1	21 71
48	89	1.5	1	10 79
49	56	1.5	1	15 41
50	59	1.5	1	13 46
51	29	1.5	1	10 19
52	33	1.5	1	12 21
53	33	1.5	1	4 29
54	22	1.5	1	7 15
55	21	1.5	1	1 20
56	35	1.5	1	4 31
57	43	1.5	1	2 41
58	39	1.5	1	3 36
59	41	1.5	1	4 37
60	29	1.5	1	5 24
61	45	1.5	1	8 37
62	23	1.5	1	4 19
63	17	1.5	1	4 13
64	43	1.5	1	7 36
65	29	1.5	1	12 17
66	43	1.5	1	20 23
67	81	1.5	1	14 67
68	58	1.5	1	13 45
69	45	1.5	1	12 33
70	104	1.5	1	20 84
71	91	1.5	1	5 86
72	49	1.5	1	1 48
73	37	1.5	1	1 36
74	39	1.5	1	0 39
75	41	1.5	1	2 39
76	30	1.5	1	0 30
77	41	1.5	1	0 41
78	59	1.5	1	0 59
79	81	1.5	1	0 81
80	44	1.5	1	0 44
81	89	1.5	1	0 89
82	66	1.5	1	0 66
83	66	1.5	1	0 66
84	61	1.5	1	0 61
85	48	1.5	1	0 48
86	60	1.5	1	0 60
87	62	1.5	1	0 62
88	77	1.5	1	0 77
89	32	1.5	1	0 32
90	64	1.5	1	0 64
91	56	1.5	1	0 56
92	38	1.5	1	0 38
93	27	1.5	1	0 27
94	29	1.5	1	0 29
95	76	1.5	1	0 76
96	16	1.5	1	0 16
97	50	1.5	1	0 50
98	35	1.5	1	0 35
99	8	1.5	1	0 8
100	15	1.5	1	1 14
101	83	1.5	1	0 83


RUN STATISTICS FOR INPUT FILE: SRR3192658_1.fastq.gz
=============================================
97548052 sequences processed in total

