| |
PhiX-Bv
|
PhiX-GA
|
|---|
| |
Expected (%)a
|
Observed (%)b
|
Percentage bases removed
|
Expected (%)a
|
Observed (%)b
|
Percentage bases removed
|
|---|
|
No filter
|
4.549
|
0.650
|
0.0
|
5.829
|
1.555
|
0.0
|
|
ChF
|
2.989
|
0.399
|
4.8
|
5.292
|
1.349
|
2.0
|
|
C33
|
2.121
|
0.274
|
9.3
|
4.823
|
1.113
|
3.3
|
|
B-tail
|
0.166
|
0.130
|
7.0
|
0.194
|
0.309
|
9.0
|
|
B-tail + ChF
|
0.137
|
0.107
|
9.1
|
0.182
|
0.280
|
9.9
|
|
B-tail + N
|
0.159
|
0.130
|
7.2
|
0.187
|
0.310
|
9.5
|
|
B-tail + C33
|
0.106
|
0.088
|
12.2
|
0.172
|
0.251
|
10.5
|
|
B-tail + A30
|
0.114
|
0.092
|
11.3
|
0.172
|
0.262
|
10.5
|
|
B-tail + ChF + C33
|
0.105
|
0.087
|
12.5
|
0.170
|
0.248
|
10.9
|
|
B-tail + ChF + A30
|
0.113
|
0.091
|
11.6
|
0.170
|
0.257
|
10.8
|
-
aExpected error rate: average error probability of each base, assigned by Illumina as Q-scores. bObserved error rate: substitution error rate of aligned bases. ChF, Illumina chastity filter; B-tail, B-tail trimming; N, removal of reads with at least one uncalled base; C33, removal of reads that have less than two-thirds of Q ≥ 30 bases within the first half of the read; A30, removal of reads that have an average Q-score < 30 in the first 30% of the read.
