SUMMARISING RUN PARAMETERS
==========================
Input filename: KO-13004-2.end1.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.4.4
Cutadapt version: 1.16
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
All sequences will be trimmed by 1 bp on their 3' end to avoid problems with invalid paired-end alignments with Bowtie 1
Output file will be GZIP compressed


This is cutadapt 1.16 with Python 2.7.13
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA KO-13004-2.end1.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 665.10 s (36 us/read; 1.64 M reads/minute).

=== Summary ===

Total reads processed:              18,231,944
Reads with adapters:                 7,185,871 (39.4%)
Reads written (passing filters):    18,231,944 (100.0%)

Total basepairs processed: 1,172,740,615 bp
Quality-trimmed:                  10,862 bp (0.0%)
Total written (filtered):  1,159,953,763 bp (98.9%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 7185871 times.

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

Bases preceding removed adapters:
  A: 26.9%
  C: 27.7%
  G: 23.2%
  T: 22.2%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	5597972	4557986.0	0	5597972
2	1069103	1139496.5	0	1069103
3	294156	284874.1	0	294156
4	65452	71218.5	0	65452
5	17251	17804.6	0	17251
6	10209	4451.2	0	10209
7	3757	1112.8	0	3757
8	2868	278.2	0	2868
9	2921	69.5	0	2379 542
10	2871	17.4	1	2055 816
11	3160	4.3	1	2194 966
12	2772	1.1	1	2225 547
13	2764	1.1	1	2320 444
14	2938	1.1	1	2107 831
15	2674	1.1	1	1924 750
16	2129	1.1	1	1737 392
17	2240	1.1	1	1921 319
18	2186	1.1	1	2028 158
19	2665	1.1	1	2400 265
20	2875	1.1	1	2597 278
21	3110	1.1	1	2926 184
22	3982	1.1	1	3328 654
23	4202	1.1	1	3985 217
24	4253	1.1	1	4010 243
25	3470	1.1	1	3309 161
26	2829	1.1	1	2641 188
27	2750	1.1	1	2450 300
28	3030	1.1	1	2781 249
29	3511	1.1	1	3243 268
30	3857	1.1	1	3698 159
31	3876	1.1	1	3707 169
32	4139	1.1	1	4001 138
33	5709	1.1	1	5447 262
34	5771	1.1	1	5597 174
35	5381	1.1	1	5220 161
36	4255	1.1	1	4088 167
37	3439	1.1	1	3303 136
38	3554	1.1	1	3325 229
39	3385	1.1	1	3215 170
40	2427	1.1	1	2235 192
41	1405	1.1	1	1249 156
42	852	1.1	1	732 120
43	994	1.1	1	638 356
44	400	1.1	1	259 141
45	543	1.1	1	291 252
46	525	1.1	1	313 212
47	442	1.1	1	322 120
48	755	1.1	1	489 266
49	1070	1.1	1	924 146
50	1323	1.1	1	102 1221
51	252	1.1	1	21 231
52	208	1.1	1	9 199
53	422	1.1	1	5 417
54	95	1.1	1	1 94
55	359	1.1	1	3 356
56	176	1.1	1	4 172
57	125	1.1	1	3 122
58	299	1.1	1	1 298
59	200	1.1	1	1 199
60	865	1.1	1	1 864
61	138	1.1	1	0 138
62	177	1.1	1	31 146
63	312	1.1	1	2 310
64	100	1.1	1	16 84
65	107	1.1	1	9 98
66	118	1.1	1	6 112
67	167	1.1	1	4 163
68	316	1.1	1	4 312
69	60	1.1	1	9 51
70	73	1.1	1	3 70
71	41	1.1	1	11 30
72	85	1.1	1	15 70
73	337	1.1	1	10 327
74	134	1.1	1	73 61
75	2451	1.1	1	2286 165
76	52	1.1	1	2 50


RUN STATISTICS FOR INPUT FILE: KO-13004-2.end1.fastq.gz
=============================================
18231944 sequences processed in total