SUMMARISING RUN PARAMETERS
==========================
Input filename: ENCFF001HPI.fastq.gz
Trimming mode: single-end
Trim Galore version: 0.4.1
Cutadapt version: 1.10
Quality Phred score cutoff: 20
Quality encoding type selected: ASCII+33
Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected)
Maximum trimming error rate: 0.1 (default)
Minimum required adapter overlap (stringency): 1 bp
Minimum required sequence length before a sequence gets removed: 20 bp
Output file will be GZIP compressed


This is cutadapt 1.10 with Python 2.7.5
Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ENCFF001HPI.fastq.gz
Trimming 1 adapter with at most 10.0% errors in single-end mode ...
Finished in 444.94 s (26 us/read; 2.32 M reads/minute).

=== Summary ===

Total reads processed:              17,212,375
Reads with adapters:                 6,390,782 (37.1%)
Reads written (passing filters):    17,212,375 (100.0%)

Total basepairs processed:   619,645,500 bp
Quality-trimmed:                       0 bp (0.0%)
Total written (filtered):    607,179,255 bp (98.0%)

=== Adapter 1 ===

Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 6390782 times.

No. of allowed errors:
0-9 bp: 0; 10-13 bp: 1

Bases preceding removed adapters:
  A: 31.4%
  C: 27.5%
  G: 20.9%
  T: 19.4%
  none/other: 0.7%

Overview of removed sequences
length	count	expect	max.err	error counts
1	4459862	4303093.8	0	4459862
2	1216163	1075773.4	0	1216163
3	376029	268943.4	0	376029
4	81328	67235.8	0	81328
5	16749	16809.0	0	16749
6	2645	4202.2	0	2645
7	1219	1050.6	0	1219
8	1060	262.6	0	1060
9	2754	65.7	0	2492 262
10	943	16.4	1	560 383
11	584	4.1	1	420 164
12	539	1.0	1	451 88
13	563	0.3	1	499 64
14	678	0.3	1	603 75
15	925	0.3	1	810 115
16	4882	0.3	1	4222 660
17	214861	0.3	1	193564 21297
18	1353	0.3	1	1217 136
19	891	0.3	1	794 97
20	964	0.3	1	884 80
21	494	0.3	1	443 51
22	4042	0.3	1	3667 375
23	241	0.3	1	215 26
24	170	0.3	1	146 24
25	259	0.3	1	233 26
26	65	0.3	1	59 6
27	40	0.3	1	27 13
28	11	0.3	1	7 4
29	16	0.3	1	8 8
30	15	0.3	1	3 12
31	9	0.3	1	5 4
32	15	0.3	1	3 12
33	11	0.3	1	3 8
34	18	0.3	1	6 12
35	22	0.3	1	4 18
36	362	0.3	1	35 327


RUN STATISTICS FOR INPUT FILE: ENCFF001HPI.fastq.gz
=============================================
17212375 sequences processed in total
Sequences removed because they became shorter than the length cutoff of 20 bp:	223859 (1.3%)