Sortie 2 : essai 2 de cutadapt - Dioufamad/SNPs_Calling GitHub Wiki

Trimming 4 adapters with at most 10.0% errors in paired-end mode ...
Finished in 195.98 s (60 us/read; 1.00 M reads/minute).

=== Summary ===

Total read pairs processed:          3,266,994
  Read 1 with adapter:                   1,141 (0.0%)
  Read 2 with adapter:                   1,081 (0.0%)
Pairs that were too short:                   0 (0.0%)
Pairs written (passing filters):     3,266,994 (100.0%)

Total basepairs processed:   542,321,004 bp
  Read 1:   271,160,502 bp
  Read 2:   271,160,502 bp
Quality-trimmed:                       0 bp (0.0%)
  Read 1:             0 bp
  Read 2:             0 bp
Total written (filtered):    483,492,795 bp (89.2%)
  Read 1:   241,746,133 bp
  Read 2:   241,746,662 bp

=== First read: Adapter 1 ===

Sequence: ACACTCTTTCCCTACACGACGCTCTTCCGATCT; Type: variable 5'/3'; Length: 33; Trimmed: 533 times.
253 times, it overlapped the 5' end of a read
280 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	82	12.5	0	0 82
10	100	3.1	1	4 96
11	42	0.8	1	0 42
12	23	0.2	1	1 22
13	5	0.0	1	0 5
14	1	0.0	1	0 1


Overview of removed sequences (3' or within)
length	count	expect	max.err	error counts
9	91	12.5	0	0 91
10	137	3.1	1	3 134
11	35	0.8	1	0 35
12	14	0.2	1	0 14
13	3	0.0	1	0 3

=== First read: Adapter 2 ===

Sequence: TCTAGCCTTCTCGCAGCACATCCCTTTCTCACA; Type: variable 5'/3'; Length: 33; Trimmed: 608 times.
333 times, it overlapped the 5' end of a read
275 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	114	12.5	0	0 114
10	131	3.1	1	4 127
11	66	0.8	1	0 66
12	15	0.2	1	1 14
13	4	0.0	1	0 4
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	88	12.5	0	0 88
10	116	3.1	1	1 115
11	55	0.8	1	1 54
12	15	0.2	1	0 15
13	1	0.0	1	0 1

=== Second read: Adapter 3 ===

Sequence: ACACTCTTTCCCTACACGACGCTCTTCCGATCT; Type: variable 5'/3'; Length: 33; Trimmed: 468 times.
216 times, it overlapped the 5' end of a read
252 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	61	12.5	0	0 61
10	90	3.1	1	4 86
11	44	0.8	1	1 43
12	19	0.2	1	0 19
13	2	0.0	1	0 2


Overview of removed sequences (3' or within)
length	count	expect	max.err	error counts
9	84	12.5	0	0 84
10	105	3.1	1	2 103
11	43	0.8	1	1 42
12	12	0.2	1	0 12
13	3	0.0	1	0 3
14	3	0.0	1	0 3
15	1	0.0	1	0 1
17	1	0.0	1	0 1

=== Second read: Adapter 4 ===

Sequence: TCTAGCCTTCTCGCAGCACATCCCTTTCTCACA; Type: variable 5'/3'; Length: 33; Trimmed: 613 times.
330 times, it overlapped the 5' end of a read
283 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	107	12.5	0	0 107
10	135	3.1	1	6 129
11	58	0.8	1	1 57
12	22	0.2	1	0 22
13	6	0.0	1	0 6
14	2	0.0	1	0 2


Overview of removed sequences (3' or within)
length	count	expect	max.err	error counts
9	87	12.5	0	0 87
10	122	3.1	1	3 119
11	49	0.8	1	2 47
12	20	0.2	1	0 20
13	4	0.0	1	0 4
16	1	0.0	1	0 1

[adiouf@node19 test2_cutadapt]$ ls
AX227_1.cleaned.fastq  AX227_2.cleaned.fastq  BX227_1.cleaned.fastq  BX227_2.cleaned.fastq