
SUMMARISING RUN PARAMETERS
==========================
Input filename: SRR3192401_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: 'CTGTCTCTTATA' (Nextera Transposase sequence; 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 CTGTCTCTTATA SRR3192401_1.fastq.gz
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 2121.80 s (22 us/read; 2.71 M reads/minute).

=== Summary ===

Total reads processed:              95,735,344
Reads with adapters:                37,721,932 (39.4%)
Reads written (passing filters):    95,735,344 (100.0%)

Total basepairs processed: 9,573,534,400 bp
Quality-trimmed:             325,568,713 bp (3.4%)
Total written (filtered):  8,984,320,742 bp (93.8%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 37721932 times.

No. of allowed errors:
0-9 bp: 0; 10-12 bp: 1

Bases preceding removed adapters:
  A: 18.6%
  C: 32.8%
  G: 24.3%
  T: 24.3%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	18858835	23933836.0	0	18858835
2	5848235	5983459.0	0	5848235
3	2337808	1495864.8	0	2337808
4	732193	373966.2	0	732193
5	468842	93491.5	0	468842
6	410061	23372.9	0	410061
7	369412	5843.2	0	369412
8	403648	1460.8	0	403648
9	428873	365.2	0	426235 2638
10	386106	91.3	1	380116 5990
11	399408	22.8	1	393870 5538
12	397945	5.7	1	392782 5163
13	343813	5.7	1	339592 4221
14	314038	5.7	1	309988 4050
15	280496	5.7	1	276661 3835
16	264568	5.7	1	260595 3973
17	247940	5.7	1	244181 3759
18	245633	5.7	1	241939 3694
19	261461	5.7	1	257418 4043
20	253541	5.7	1	249130 4411
21	294858	5.7	1	289367 5491
22	214473	5.7	1	211344 3129
23	179194	5.7	1	176920 2274
24	166056	5.7	1	164378 1678
25	154611	5.7	1	152557 2054
26	151634	5.7	1	150061 1573
27	163157	5.7	1	161100 2057
28	147009	5.7	1	145082 1927
29	178843	5.7	1	175751 3092
30	147535	5.7	1	144941 2594
31	126476	5.7	1	124700 1776
32	112796	5.7	1	110178 2618
33	118319	5.7	1	107605 10714
34	132450	5.7	1	121727 10723
35	155605	5.7	1	144748 10857
36	138894	5.7	1	127741 11153
37	126679	5.7	1	116071 10608
38	118989	5.7	1	108894 10095
39	142270	5.7	1	131406 10864
40	126020	5.7	1	116799 9221
41	129692	5.7	1	120684 9008
42	124729	5.7	1	116322 8407
43	150744	5.7	1	141781 8963
44	81789	5.7	1	75493 6296
45	52862	5.7	1	51873 989
46	48877	5.7	1	47670 1207
47	68220	5.7	1	67068 1152
48	79736	5.7	1	78334 1402
49	54934	5.7	1	53811 1123
50	47493	5.7	1	46361 1132
51	50978	5.7	1	49696 1282
52	45164	5.7	1	44033 1131
53	46714	5.7	1	45428 1286
54	59991	5.7	1	58505 1486
55	51196	5.7	1	50014 1182
56	27059	5.7	1	26273 786
57	23470	5.7	1	22435 1035
58	25974	5.7	1	25317 657
59	30101	5.7	1	29228 873
60	22739	5.7	1	22005 734
61	25971	5.7	1	25242 729
62	19628	5.7	1	18688 940
63	15686	5.7	1	14977 709
64	13933	5.7	1	13299 634
65	12655	5.7	1	11921 734
66	7224	5.7	1	6638 586
67	5153	5.7	1	3982 1171
68	3661	5.7	1	2929 732
69	3764	5.7	1	2930 834
70	4086	5.7	1	3516 570
71	5135	5.7	1	4422 713
72	6547	5.7	1	5210 1337
73	4508	5.7	1	3807 701
74	6199	5.7	1	1201 4998
75	983	5.7	1	133 850
76	418	5.7	1	57 361
77	1176	5.7	1	37 1139
78	301	5.7	1	13 288
79	913	5.7	1	1 912
80	317	5.7	1	3 314
81	395	5.7	1	1 394
82	877	5.7	1	2 875
83	334	5.7	1	0 334
84	2718	5.7	1	4 2714
85	455	5.7	1	0 455
86	331	5.7	1	2 329
87	1055	5.7	1	3 1052
88	293	5.7	1	2 291
89	328	5.7	1	2 326
90	447	5.7	1	4 443
91	488	5.7	1	1 487
92	1934	5.7	1	8 1926
93	163	5.7	1	0 163
94	334	5.7	1	1 333
95	124	5.7	1	0 124
96	200	5.7	1	2 198
97	1207	5.7	1	2 1205
98	277	5.7	1	0 277
99	445	5.7	1	1 444
100	83	5.7	1	0 83


RUN STATISTICS FOR INPUT FILE: SRR3192401_1.fastq.gz
=============================================
95735344 sequences processed in total

