SUMMARISING RUN PARAMETERS
==========================
Input filename: KO-N4371-2.end2.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-N4371-2.end2.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 819.50 s (35 us/read; 1.69 M reads/minute).

=== Summary ===

Total reads processed:              23,086,373
Reads with adapters:                 9,130,373 (39.5%)
Reads written (passing filters):    23,086,373 (100.0%)

Total basepairs processed: 1,485,521,156 bp
Quality-trimmed:                 102,208 bp (0.0%)
Total written (filtered):  1,469,298,826 bp (98.9%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 9130373 times.

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

Bases preceding removed adapters:
  A: 26.9%
  C: 27.6%
  G: 23.6%
  T: 21.8%
  none/other: 0.1%

Overview of removed sequences
length	count	expect	max.err	error counts
1	7123031	5771593.2	0	7123031
2	1351407	1442898.3	0	1351407
3	375235	360724.6	0	375235
4	82510	90181.1	0	82510
5	22091	22545.3	0	22091
6	12321	5636.3	0	12321
7	4418	1409.1	0	4418
8	3361	352.3	0	3361
9	3476	88.1	0	2770 706
10	3495	22.0	1	2367 1128
11	4034	5.5	1	2579 1455
12	3657	1.4	1	2746 911
13	3262	1.4	1	2638 624
14	3681	1.4	1	2599 1082
15	3317	1.4	1	2325 992
16	2627	1.4	1	2084 543
17	2724	1.4	1	2178 546
18	2754	1.4	1	2455 299
19	3428	1.4	1	3034 394
20	3447	1.4	1	3004 443
21	3951	1.4	1	3612 339
22	4980	1.4	1	4061 919
23	5549	1.4	1	5197 352
24	5461	1.4	1	5070 391
25	4105	1.4	1	3814 291
26	3234	1.4	1	2918 316
27	3331	1.4	1	2926 405
28	3751	1.4	1	3346 405
29	4156	1.4	1	3788 368
30	4649	1.4	1	4304 345
31	5110	1.4	1	4698 412
32	5620	1.4	1	5197 423
33	10335	1.4	1	9782 553
34	4339	1.4	1	4001 338
35	8028	1.4	1	7617 411
36	4159	1.4	1	3852 307
37	3934	1.4	1	3662 272
38	6756	1.4	1	6332 424
39	2138	1.4	1	1888 250
40	3420	1.4	1	3099 321
41	1597	1.4	1	1366 231
42	1129	1.4	1	921 208
43	1039	1.4	1	568 471
44	640	1.4	1	452 188
45	712	1.4	1	396 316
46	680	1.4	1	433 247
47	487	1.4	1	284 203
48	986	1.4	1	627 359
49	1105	1.4	1	900 205
50	1453	1.4	1	111 1342
51	316	1.4	1	17 299
52	228	1.4	1	10 218
53	448	1.4	1	5 443
54	122	1.4	1	5 117
55	432	1.4	1	9 423
56	206	1.4	1	4 202
57	121	1.4	1	1 120
58	427	1.4	1	8 419
59	249	1.4	1	6 243
60	987	1.4	1	7 980
61	174	1.4	1	7 167
62	256	1.4	1	63 193
63	387	1.4	1	10 377
64	136	1.4	1	23 113
65	131	1.4	1	7 124
66	156	1.4	1	5 151
67	227	1.4	1	12 215
68	373	1.4	1	7 366
69	87	1.4	1	6 81
70	90	1.4	1	17 73
71	68	1.4	1	10 58
72	117	1.4	1	30 87
73	377	1.4	1	25 352
74	199	1.4	1	95 104
75	2846	1.4	1	2632 214
76	103	1.4	1	15 88


RUN STATISTICS FOR INPUT FILE: KO-N4371-2.end2.fastq.gz
=============================================
23086373 sequences processed in total

Total number of sequences analysed for the sequence pair length validation: 23086373

Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 21022 (0.09%)