Sortie 1 : essai 1 de cutadapt - Dioufamad/SNPs_Calling GitHub Wiki
This is cutadapt 1.10 with Python 2.7.10
Command line parameters: -b ACACTCTTTCCCTACACGACGCTCTTCCGATCT -B ACACTCTTTCCCTACACGACGCTCTTCCGATCT -O 10 -m 35 -b TCTAGCCTTCTCGCAGCACATCCCTTTCTCACA -B TCTAGCCTTCTCGCAGCACATCCCTTTCTCACA -q 30,30 -o ./test2_cutadapt/AX227_1.cleaned.fastq -p ./test2_cutadapt/AX227_2.cleaned.fastq ./FASTQ-RAW-2MOD/AX227_1.fq.gz ./FASTQ-RAW-2MOD/AX227_2.fq.gz
Trimming 4 adapters with at most 10.0% errors in paired-end mode ...
Finished in 198.58 s (58 us/read; 1.03 M reads/minute).
=== Summary ===
Total read pairs processed: 3,405,443
Read 1 with adapter: 1,223 (0.0%)
Read 2 with adapter: 1,256 (0.0%)
Pairs that were too short: 0 (0.0%)
Pairs written (passing filters): 3,405,443 (100.0%)
Total basepairs processed: 565,303,538 bp
Read 1: 282,651,769 bp
Read 2: 282,651,769 bp
Quality-trimmed: 0 bp (0.0%)
Read 1: 0 bp
Read 2: 0 bp
Total written (filtered): 565,278,749 bp (100.0%)
Read 1: 282,639,639 bp
Read 2: 282,639,110 bp
=== First read: Adapter 1 ===
Sequence: ACACTCTTTCCCTACACGACGCTCTTCCGATCT; Type: variable 5'/3'; Length: 33; Trimmed: 543 times.
261 times, it overlapped the 5' end of a read
282 times, it overlapped the 3' end or was within the read
No. of allowed errors:
0-9 bp: 0; 10-19 bp: 1; 20-29 bp: 2; 30-33 bp: 3
Overview of removed sequences (5')
length count expect max.err error counts
9 108 13.0 0 0 108
10 82 3.2 1 4 78
11 48 0.8 1 0 48
12 12 0.2 1 0 12
13 9 0.1 1 2 7
14 2 0.0 1 0 2
Overview of removed sequences (3' or within)
length count expect max.err error counts
9 102 13.0 0 0 102
10 123 3.2 1 2 121
11 45 0.8 1 1 44
12 9 0.2 1 0 9
13 1 0.1 1 0 1
14 1 0.0 1 0 1
15 1 0.0 1 0 1
=== First read: Adapter 2 ===
Sequence: TCTAGCCTTCTCGCAGCACATCCCTTTCTCACA; Type: variable 5'/3'; Length: 33; Trimmed: 680 times.
390 times, it overlapped the 5' end of a read
290 times, it overlapped the 3' end or was within the read
No. of allowed errors:
0-9 bp: 0; 10-19 bp: 1; 20-29 bp: 2; 30-33 bp: 3
Overview of removed sequences (5')
length count expect max.err error counts
9 155 13.0 0 0 155
10 160 3.2 1 4 156
11 63 0.8 1 1 62
12 8 0.2 1 0 8
13 4 0.1 1 0 4
Overview of removed sequences (3' or within)
length count expect max.err error counts
9 89 13.0 0 0 89
10 139 3.2 1 3 136
11 46 0.8 1 0 46
12 13 0.2 1 1 12
13 3 0.1 1 0 3
=== Second read: Adapter 3 ===
Sequence: ACACTCTTTCCCTACACGACGCTCTTCCGATCT; Type: variable 5'/3'; Length: 33; Trimmed: 583 times.
316 times, it overlapped the 5' end of a read
267 times, it overlapped the 3' end or was within the read
No. of allowed errors:
0-9 bp: 0; 10-19 bp: 1; 20-29 bp: 2; 30-33 bp: 3
Overview of removed sequences (5')
length count expect max.err error counts
9 92 13.0 0 0 92
10 105 3.2 1 1 104
11 63 0.8 1 3 60
12 46 0.2 1 25 21
13 7 0.1 1 1 6
14 2 0.0 1 0 2
15 1 0.0 1 0 1
Overview of removed sequences (3' or within)
length count expect max.err error counts
9 85 13.0 0 0 85
10 120 3.2 1 3 117
11 47 0.8 1 0 47
12 8 0.2 1 0 8
13 6 0.1 1 0 6
14 1 0.0 1 0 1
=== Second read: Adapter 4 ===
Sequence: TCTAGCCTTCTCGCAGCACATCCCTTTCTCACA; Type: variable 5'/3'; Length: 33; Trimmed: 673 times.
399 times, it overlapped the 5' end of a read
274 times, it overlapped the 3' end or was within the read
No. of allowed errors:
0-9 bp: 0; 10-19 bp: 1; 20-29 bp: 2; 30-33 bp: 3
Overview of removed sequences (5')
length count expect max.err error counts
9 151 13.0 0 0 151
10 158 3.2 1 2 156
11 63 0.8 1 0 63
12 16 0.2 1 1 15
13 10 0.1 1 0 10
15 1 0.0 1 0 1
Overview of removed sequences (3' or within)
length count expect max.err error counts
9 73 13.0 0 0 73
10 128 3.2 1 1 127
11 56 0.8 1 0 56
12 11 0.2 1 0 11
13 6 0.1 1 0 6