SUMMARISING RUN PARAMETERS
==========================
Input filename: KO-13006-1.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-13006-1.end1.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 1015.03 s (36 us/read; 1.68 M reads/minute).

=== Summary ===

Total reads processed:              28,470,155
Reads with adapters:                11,925,352 (41.9%)
Reads written (passing filters):    28,470,155 (100.0%)

Total basepairs processed: 1,890,417,953 bp
Quality-trimmed:                 943,307 bp (0.0%)
Total written (filtered):  1,833,937,061 bp (97.0%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 11925352 times.

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

Bases preceding removed adapters:
  A: 24.7%
  C: 29.5%
  G: 23.1%
  T: 22.3%
  none/other: 0.4%

Overview of removed sequences
length	count	expect	max.err	error counts
1	8053514	7117538.8	0	8053514
2	1644804	1779384.7	0	1644804
3	459141	444846.2	0	459141
4	122561	111211.5	0	122561
5	50304	27802.9	0	50304
6	30938	6950.7	0	30938
7	26750	1737.7	0	26750
8	24981	434.4	0	24981
9	29566	108.6	0	28734 832
10	33825	27.2	1	29560 4265
11	35068	6.8	1	29408 5660
12	37340	1.7	1	32098 5242
13	36705	1.7	1	30724 5981
14	36778	1.7	1	31484 5294
15	36286	1.7	1	30183 6103
16	30519	1.7	1	26121 4398
17	31495	1.7	1	26660 4835
18	31199	1.7	1	26978 4221
19	34805	1.7	1	32125 2680
20	39389	1.7	1	35829 3560
21	46809	1.7	1	43039 3770
22	50036	1.7	1	44423 5613
23	51875	1.7	1	46000 5875
24	58549	1.7	1	52336 6213
25	58808	1.7	1	52304 6504
26	49639	1.7	1	43962 5677
27	42342	1.7	1	37317 5025
28	38657	1.7	1	34196 4461
29	44530	1.7	1	39462 5068
30	51551	1.7	1	45845 5706
31	50347	1.7	1	44497 5850
32	52450	1.7	1	46981 5469
33	53940	1.7	1	47819 6121
34	71379	1.7	1	63384 7995
35	64793	1.7	1	59878 4915
36	60247	1.7	1	55029 5218
37	47061	1.7	1	42471 4590
38	40440	1.7	1	35551 4889
39	35068	1.7	1	31477 3591
40	33741	1.7	1	30237 3504
41	19483	1.7	1	17232 2251
42	11753	1.7	1	10425 1328
43	9124	1.7	1	7607 1517
44	2413	1.7	1	1948 465
45	2853	1.7	1	2159 694
46	2522	1.7	1	2000 522
47	2945	1.7	1	2375 570
48	3200	1.7	1	2499 701
49	4386	1.7	1	3784 602
50	6816	1.7	1	4351 2465
51	1002	1.7	1	508 494
52	360	1.7	1	108 252
53	743	1.7	1	77 666
54	166	1.7	1	32 134
55	590	1.7	1	44 546
56	310	1.7	1	26 284
57	204	1.7	1	36 168
58	618	1.7	1	27 591
59	300	1.7	1	22 278
60	1566	1.7	1	37 1529
61	291	1.7	1	50 241
62	333	1.7	1	77 256
63	871	1.7	1	258 613
64	247	1.7	1	104 143
65	332	1.7	1	172 160
66	404	1.7	1	178 226
67	414	1.7	1	141 273
68	704	1.7	1	147 557
69	467	1.7	1	350 117
70	297	1.7	1	199 98
71	323	1.7	1	236 87
72	486	1.7	1	352 134
73	1183	1.7	1	601 582
74	1072	1.7	1	855 217
75	4617	1.7	1	4110 507
76	13727	1.7	1	12422 1305


RUN STATISTICS FOR INPUT FILE: KO-13006-1.end1.fastq.gz
=============================================
28470155 sequences processed in total