SUMMARISING RUN PARAMETERS
==========================
Input filename: A-15173-2.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 A-15173-2.end2.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 907.46 s (37 us/read; 1.61 M reads/minute).

=== Summary ===

Total reads processed:              24,422,282
Reads with adapters:                 9,555,470 (39.1%)
Reads written (passing filters):    24,422,282 (100.0%)

Total basepairs processed: 1,566,212,859 bp
Quality-trimmed:                  86,753 bp (0.0%)
Total written (filtered):  1,549,701,259 bp (98.9%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 9555470 times.

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

Bases preceding removed adapters:
  A: 27.7%
  C: 27.3%
  G: 23.1%
  T: 21.9%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	7487962	6105570.5	0	7487962
2	1413125	1526392.6	0	1413125
3	376485	381598.2	0	376485
4	82152	95399.5	0	82152
5	21266	23849.9	0	21266
6	11497	5962.5	0	11497
7	4370	1490.6	0	4370
8	3509	372.7	0	3509
9	3714	93.2	0	2951 763
10	3743	23.3	1	2493 1250
11	4300	5.8	1	2630 1670
12	3656	1.5	1	2760 896
13	3536	1.5	1	2857 679
14	4069	1.5	1	2553 1516
15	3856	1.5	1	2390 1466
16	3041	1.5	1	2254 787
17	2939	1.5	1	2246 693
18	2756	1.5	1	2515 241
19	3458	1.5	1	2977 481
20	3678	1.5	1	3146 532
21	4029	1.5	1	3706 323
22	5359	1.5	1	4159 1200
23	5829	1.5	1	5404 425
24	5920	1.5	1	5419 501
25	4452	1.5	1	4174 278
26	3444	1.5	1	3123 321
27	3413	1.5	1	3034 379
28	3909	1.5	1	3471 438
29	4330	1.5	1	3992 338
30	4831	1.5	1	4512 319
31	4999	1.5	1	4624 375
32	5384	1.5	1	5001 383
33	10137	1.5	1	9560 577
34	4514	1.5	1	4165 349
35	7637	1.5	1	7249 388
36	3835	1.5	1	3540 295
37	3435	1.5	1	3179 256
38	5692	1.5	1	5285 407
39	1757	1.5	1	1532 225
40	2378	1.5	1	2127 251
41	1132	1.5	1	909 223
42	746	1.5	1	572 174
43	830	1.5	1	371 459
44	531	1.5	1	332 199
45	772	1.5	1	327 445
46	601	1.5	1	354 247
47	510	1.5	1	271 239
48	926	1.5	1	574 352
49	1054	1.5	1	827 227
50	1878	1.5	1	97 1781
51	362	1.5	1	16 346
52	271	1.5	1	4 267
53	451	1.5	1	8 443
54	127	1.5	1	8 119
55	445	1.5	1	4 441
56	209	1.5	1	5 204
57	152	1.5	1	2 150
58	421	1.5	1	2 419
59	292	1.5	1	2 290
60	1014	1.5	1	2 1012
61	166	1.5	1	2 164
62	221	1.5	1	18 203
63	396	1.5	1	5 391
64	122	1.5	1	10 112
65	130	1.5	1	3 127
66	166	1.5	1	1 165
67	252	1.5	1	3 249
68	383	1.5	1	3 380
69	69	1.5	1	5 64
70	85	1.5	1	7 78
71	59	1.5	1	5 54
72	92	1.5	1	12 80
73	387	1.5	1	18 369
74	140	1.5	1	34 106
75	1614	1.5	1	1379 235
76	68	1.5	1	5 63


RUN STATISTICS FOR INPUT FILE: A-15173-2.end2.fastq.gz
=============================================
24422282 sequences processed in total

Total number of sequences analysed for the sequence pair length validation: 24422282

Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 20253 (0.08%)