SUMMARISING RUN PARAMETERS
==========================
Input filename: A-N4371-2.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 A-N4371-2.end1.fastq.gz
Running on 1 core
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 2105.11 s (36 us/read; 1.66 M reads/minute).

=== Summary ===

Total reads processed:              58,348,234
Reads with adapters:                22,779,585 (39.0%)
Reads written (passing filters):    58,348,234 (100.0%)

Total basepairs processed: 3,749,846,183 bp
Quality-trimmed:                  30,259 bp (0.0%)
Total written (filtered):  3,711,285,016 bp (99.0%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 22779585 times.

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

Bases preceding removed adapters:
  A: 27.4%
  C: 27.5%
  G: 22.9%
  T: 22.2%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	17813789	14587058.5	0	17813789
2	3416382	3646764.6	0	3416382
3	910087	911691.2	0	910087
4	203738	227922.8	0	203738
5	51782	56980.7	0	51782
6	28255	14245.2	0	28255
7	10070	3561.3	0	10070
8	7918	890.3	0	7918
9	8023	222.6	0	6216 1807
10	7735	55.6	1	5349 2386
11	9193	13.9	1	5840 3353
12	7814	3.5	1	6088 1726
13	7508	3.5	1	6100 1408
14	8847	3.5	1	5518 3329
15	7811	3.5	1	4932 2879
16	6097	3.5	1	4698 1399
17	6297	3.5	1	4916 1381
18	6033	3.5	1	5547 486
19	7148	3.5	1	6173 975
20	7927	3.5	1	6827 1100
21	8490	3.5	1	7902 588
22	11483	3.5	1	8981 2502
23	11018	3.5	1	10301 717
24	10934	3.5	1	10173 761
25	9007	3.5	1	8554 453
26	7672	3.5	1	7079 593
27	7561	3.5	1	6629 932
28	8102	3.5	1	7353 749
29	9580	3.5	1	8798 782
30	10412	3.5	1	9918 494
31	10736	3.5	1	10256 480
32	11048	3.5	1	10565 483
33	15264	3.5	1	14487 777
34	16064	3.5	1	15492 572
35	14734	3.5	1	14247 487
36	10939	3.5	1	10403 536
37	8984	3.5	1	8604 380
38	9667	3.5	1	8985 682
39	9020	3.5	1	8517 503
40	5877	3.5	1	5366 511
41	3168	3.5	1	2698 470
42	1971	3.5	1	1599 372
43	2649	3.5	1	1394 1255
44	1072	3.5	1	611 461
45	1655	3.5	1	734 921
46	1393	3.5	1	772 621
47	1317	3.5	1	761 556
48	2031	3.5	1	1162 869
49	2544	3.5	1	2031 513
50	4479	3.5	1	237 4242
51	823	3.5	1	45 778
52	670	3.5	1	21 649
53	1262	3.5	1	11 1251
54	310	3.5	1	13 297
55	1078	3.5	1	4 1074
56	561	3.5	1	7 554
57	415	3.5	1	9 406
58	1082	3.5	1	4 1078
59	698	3.5	1	6 692
60	2584	3.5	1	0 2584
61	434	3.5	1	1 433
62	537	3.5	1	24 513
63	974	3.5	1	1 973
64	274	3.5	1	6 268
65	271	3.5	1	9 262
66	424	3.5	1	7 417
67	577	3.5	1	15 562
68	974	3.5	1	15 959
69	181	3.5	1	7 174
70	196	3.5	1	5 191
71	116	3.5	1	4 112
72	228	3.5	1	18 210
73	954	3.5	1	29 925
74	294	3.5	1	65 229
75	2230	3.5	1	1788 442
76	113	3.5	1	3 110


RUN STATISTICS FOR INPUT FILE: A-N4371-2.end1.fastq.gz
=============================================
58348234 sequences processed in total