SUMMARISING RUN PARAMETERS
==========================
Input filename: smallRNA_100K_R1.fastq.gz
Trimming mode: paired-end
Trim Galore version: 0.6.4
Cutadapt version: 1.18
Number of cores used for trimming: 1
Quality Phred score cutoff: 20
Quality encoding type selected: ASCII+33
Using smallRNA adapter for trimming (count: 86814). Second best hit was Illumina (count: 0)
Adapter sequence: 'TGGAATTCTCGG' (Illumina small RNA adapter; auto-detected)
Maximum trimming error rate: 0.1 (default)
Optional adapter 2 sequence (only used for read 2 of paired-end files): 'GATCGTCGGACT'
Minimum required adapter overlap (stringency): 1 bp
Minimum required sequence length for both reads before a sequence pair gets removed: 18 bp
Output file will be GZIP compressed


This is cutadapt 1.18 with Python 3.5.1
Command line parameters: -j 1 -e 0.1 -q 20 -O 1 -a TGGAATTCTCGG smallRNA_100K_R1.fastq.gz
Processing reads on 1 core in single-end mode ...
Finished in 3.75 s (37 us/read; 1.60 M reads/minute).

=== Summary ===

Total reads processed:                 100,000
Reads with adapters:                    95,333 (95.3%)
Reads written (passing filters):       100,000 (100.0%)

Total basepairs processed:     5,100,000 bp
Quality-trimmed:                   9,993 bp (0.2%)
Total written (filtered):      2,414,616 bp (47.3%)

=== Adapter 1 ===

Sequence: TGGAATTCTCGG; Type: regular 3'; Length: 12; Trimmed: 95333 times.

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

Bases preceding removed adapters:
  A: 17.3%
  C: 21.7%
  G: 13.9%
  T: 45.7%
  none/other: 1.3%

Overview of removed sequences
length	count	expect	max.err	error counts
1	1602	25000.0	0	1602
2	1038	6250.0	0	1038
3	1333	1562.5	0	1333
4	357	390.6	0	357
5	617	97.7	0	617
6	651	24.4	0	651
7	212	6.1	0	212
8	295	1.5	0	295
9	616	0.4	0	615 1
10	275	0.1	1	268 7
11	197	0.0	1	195 2
12	255	0.0	1	254 1
13	215	0.0	1	193 22
14	255	0.0	1	246 9
15	326	0.0	1	300 26
16	326	0.0	1	311 15
17	1737	0.0	1	1715 22
18	804	0.0	1	792 12
19	557	0.0	1	545 12
20	302	0.0	1	294 8
21	314	0.0	1	306 8
22	313	0.0	1	293 20
23	524	0.0	1	481 43
24	469	0.0	1	429 40
25	1736	0.0	1	1702 34
26	3778	0.0	1	3695 83
27	9628	0.0	1	9468 160
28	16293	0.0	1	16101 192
29	23970	0.0	1	23710 260
30	5878	0.0	1	5793 85
31	1846	0.0	1	1819 27
32	849	0.0	1	831 18
33	617	0.0	1	611 6
34	1905	0.0	1	1878 27
35	934	0.0	1	923 11
36	2745	0.0	1	2721 24
37	1253	0.0	1	1237 16
38	853	0.0	1	843 10
39	780	0.0	1	769 11
40	1165	0.0	1	1152 13
41	673	0.0	1	667 6
42	736	0.0	1	729 7
43	743	0.0	1	733 10
44	1018	0.0	1	1009 9
45	1144	0.0	1	1133 11
46	894	0.0	1	889 5
47	622	0.0	1	615 7
48	141	0.0	1	141
49	235	0.0	1	232 3
50	65	0.0	1	63 2
51	1242	0.0	1	1164 78


RUN STATISTICS FOR INPUT FILE: smallRNA_100K_R1.fastq.gz
=============================================
100000 sequences processed in total