
SUMMARISING RUN PARAMETERS
==========================
Input filename: SRR3192400_1.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.4.1
Cutadapt version: 1.9.1
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
Running FastQC on the data once trimming has completed
Output file will be GZIP compressed


This is cutadapt 1.9.1 with Python 2.7.6
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a CTGTCTCTTATA SRR3192400_1.fastq.gz
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 2263.99 s (24 us/read; 2.54 M reads/minute).

=== Summary ===

Total reads processed:              95,791,942
Reads with adapters:                37,358,468 (39.0%)
Reads written (passing filters):    95,791,942 (100.0%)

Total basepairs processed: 9,579,194,200 bp
Quality-trimmed:             276,282,222 bp (2.9%)
Total written (filtered):  9,074,213,717 bp (94.7%)

=== Adapter 1 ===

Sequence: CTGTCTCTTATA; Type: regular 3'; Length: 12; Trimmed: 37358468 times.

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

Bases preceding removed adapters:
  A: 18.9%
  C: 32.4%
  G: 24.1%
  T: 24.6%
  none/other: 0.0%

Overview of removed sequences
length	count	expect	max.err	error counts
1	19443457	23947985.5	0	19443457
2	6046907	5986996.4	0	6046907
3	2370672	1496749.1	0	2370672
4	768377	374187.3	0	768377
5	487131	93546.8	0	487131
6	424806	23386.7	0	424806
7	381765	5846.7	0	381765
8	408266	1461.7	0	408266
9	437348	365.4	0	434441 2907
10	394207	91.4	1	388627 5580
11	401807	22.8	1	397126 4681
12	394721	5.7	1	390592 4129
13	359216	5.7	1	355660 3556
14	335536	5.7	1	332152 3384
15	266079	5.7	1	263091 2988
16	239415	5.7	1	236521 2894
17	206383	5.7	1	203718 2665
18	171799	5.7	1	169319 2480
19	179108	5.7	1	176432 2676
20	177893	5.7	1	174896 2997
21	195992	5.7	1	192476 3516
22	153730	5.7	1	151462 2268
23	134133	5.7	1	132439 1694
24	121405	5.7	1	120258 1147
25	118861	5.7	1	117150 1711
26	111181	5.7	1	109861 1320
27	120698	5.7	1	119112 1586
28	108377	5.7	1	106888 1489
29	127454	5.7	1	125162 2292
30	114164	5.7	1	112013 2151
31	105654	5.7	1	104141 1513
32	100293	5.7	1	97753 2540
33	91596	5.7	1	82531 9065
34	100498	5.7	1	90864 9634
35	160143	5.7	1	149754 10389
36	96720	5.7	1	86965 9755
37	68447	5.7	1	61094 7353
38	73226	5.7	1	66182 7044
39	74660	5.7	1	67273 7387
40	81015	5.7	1	73126 7889
41	80911	5.7	1	73202 7709
42	85555	5.7	1	77788 7767
43	101626	5.7	1	93188 8438
44	76771	5.7	1	70044 6727
45	48496	5.7	1	47574 922
46	46731	5.7	1	45599 1132
47	48585	5.7	1	47671 914
48	48937	5.7	1	47950 987
49	44410	5.7	1	43355 1055
50	44314	5.7	1	43222 1092
51	48031	5.7	1	46799 1232
52	44964	5.7	1	43801 1163
53	49469	5.7	1	48145 1324
54	51131	5.7	1	49826 1305
55	48030	5.7	1	46882 1148
56	33355	5.7	1	32430 925
57	29892	5.7	1	28728 1164
58	29993	5.7	1	29234 759
59	30616	5.7	1	29667 949
60	26844	5.7	1	26029 815
61	30479	5.7	1	29631 848
62	26354	5.7	1	25240 1114
63	22806	5.7	1	21946 860
64	20993	5.7	1	20258 735
65	16107	5.7	1	15276 831
66	10012	5.7	1	9360 652
67	7056	5.7	1	5931 1125
68	4740	5.7	1	3879 861
69	4118	5.7	1	3297 821
70	4428	5.7	1	3815 613
71	5433	5.7	1	4580 853
72	7038	5.7	1	5664 1374
73	4908	5.7	1	4082 826
74	5862	5.7	1	1358 4504
75	969	5.7	1	191 778
76	420	5.7	1	63 357
77	1178	5.7	1	55 1123
78	297	5.7	1	8 289
79	942	5.7	1	6 936
80	312	5.7	1	8 304
81	406	5.7	1	2 404
82	881	5.7	1	5 876
83	293	5.7	1	0 293
84	2615	5.7	1	4 2611
85	438	5.7	1	4 434
86	340	5.7	1	1 339
87	930	5.7	1	0 930
88	310	5.7	1	1 309
89	352	5.7	1	0 352
90	509	5.7	1	6 503
91	479	5.7	1	2 477
92	1860	5.7	1	2 1858
93	168	5.7	1	1 167
94	309	5.7	1	1 308
95	130	5.7	1	0 130
96	230	5.7	1	0 230
97	1179	5.7	1	3 1176
98	310	5.7	1	0 310
99	386	5.7	1	0 386
100	90	5.7	1	0 90


RUN STATISTICS FOR INPUT FILE: SRR3192400_1.fastq.gz
=============================================
95791942 sequences processed in total

