|
4
|
1
|
|
|
2 SUMMARISING RUN PARAMETERS
|
|
|
3 ==========================
|
|
|
4 Input filename: ./input_mate1
|
|
|
5 Trimming mode: paired-end
|
|
|
6 Trim Galore version: 0.3.7
|
|
|
7 Quality Phred score cutoff: 20
|
|
|
8 Quality encoding type selected: ASCII+33
|
|
|
9 Adapter sequence: 'AGATCGGAAGAGC'
|
|
|
10 Maximum trimming error rate: 0.1 (default)
|
|
|
11 Minimum required adapter overlap (stringency): 1 bp
|
|
|
12 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
|
|
|
13
|
|
|
14
|
|
|
15 cutadapt version 1.1
|
|
|
16 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_mate1
|
|
|
17 Maximum error rate: 10.00%
|
|
|
18 Processed reads: 100
|
|
|
19 Trimmed reads: 20 ( 20.0%)
|
|
|
20 Total basepairs: 24894 (0.0 Mbp)
|
|
|
21 Trimmed basepairs: 26 (0.0 Mbp) (0.10% of total)
|
|
|
22 Too short reads: 0 ( 0.0% of processed reads)
|
|
|
23 Too long reads: 0 ( 0.0% of processed reads)
|
|
|
24 Total time: 0.00 s
|
|
|
25 Time per read: 0.02 ms
|
|
|
26
|
|
|
27 === Adapter 1 ===
|
|
|
28
|
|
|
29 Adapter 'AGATCGGAAGAGC', length 13, was trimmed 20 times.
|
|
|
30
|
|
|
31 Lengths of removed sequences
|
|
|
32 length count expected
|
|
|
33 1 16 25.0
|
|
|
34 2 2 6.2
|
|
|
35 3 2 1.6
|
|
|
36
|
|
|
37
|
|
|
38 RUN STATISTICS FOR INPUT FILE: ./input_mate1
|
|
|
39 =============================================
|
|
|
40 100 sequences processed in total
|
|
|
41
|
|
|
42
|
|
|
43 SUMMARISING RUN PARAMETERS
|
|
|
44 ==========================
|
|
|
45 Input filename: ./input_mate2
|
|
|
46 Trimming mode: paired-end
|
|
|
47 Trim Galore version: 0.3.7
|
|
|
48 Quality Phred score cutoff: 20
|
|
|
49 Quality encoding type selected: ASCII+33
|
|
|
50 Adapter sequence: 'AGATCGGAAGAGC'
|
|
|
51 Maximum trimming error rate: 0.1 (default)
|
|
|
52 Minimum required adapter overlap (stringency): 1 bp
|
|
|
53 Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp
|
|
|
54
|
|
|
55
|
|
|
56 cutadapt version 1.1
|
|
|
57 Command line parameters: -f fastq -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ./input_mate2
|
|
|
58 Maximum error rate: 10.00%
|
|
|
59 Processed reads: 100
|
|
|
60 Trimmed reads: 24 ( 24.0%)
|
|
|
61 Total basepairs: 24354 (0.0 Mbp)
|
|
|
62 Trimmed basepairs: 36 (0.0 Mbp) (0.15% of total)
|
|
|
63 Too short reads: 0 ( 0.0% of processed reads)
|
|
|
64 Too long reads: 0 ( 0.0% of processed reads)
|
|
|
65 Total time: 0.01 s
|
|
|
66 Time per read: 0.12 ms
|
|
|
67
|
|
|
68 === Adapter 1 ===
|
|
|
69
|
|
|
70 Adapter 'AGATCGGAAGAGC', length 13, was trimmed 24 times.
|
|
|
71
|
|
|
72 Lengths of removed sequences
|
|
|
73 length count expected
|
|
|
74 1 15 25.0
|
|
|
75 2 7 6.2
|
|
|
76 3 1 1.6
|
|
|
77 4 1 0.4
|
|
|
78
|
|
|
79
|
|
|
80 RUN STATISTICS FOR INPUT FILE: ./input_mate2
|
|
|
81 =============================================
|
|
|
82 100 sequences processed in total
|
|
|
83
|
|
|
84 Total number of sequences analysed for the sequence pair length validation: 100
|
|
|
85
|
|
|
86 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 1 (1.00%)
|
