Factor/Assay (Condition)
|
Completea
|
Partial Genotypeb Imbalances
|
No Genotypec Imbalances
|
---|
Total
|
Partial
|
None
|
Total
|
Known variants
|
Predicted variants
|
Total
|
Known variants
|
Predicted variants
|
---|
Nt
|
Nimp
|
Ncom
|
Nt
|
Sens
|
Prec
|
Nimp
|
Sens
|
Prec
|
Nt-Nimp
|
Sens
|
Prec
|
Nt
|
Sens
|
Prec
|
Ncom
|
Sens
|
Prec
|
Nt-Ncom
|
Sens
|
Prec
|
---|
CREB1 (50 bp)
|
200
|
125
|
141
|
190
|
73.0
|
76.8
|
134
|
96.8
|
90.3
|
56
|
33.3
|
44.6
|
203
|
76.0
|
74.9
|
160
|
93.6
|
82.5
|
43
|
33.9
|
46.5
|
CREB1 (35 bp)
|
106
|
70
|
81
|
104
|
73.6
|
75.0
|
74
|
97.1
|
91.9
|
30
|
27.8
|
33.3
|
107
|
77.4
|
76.6
|
87
|
92.6
|
86.2
|
20
|
28.0
|
35.0
|
CREB1 (20 bp)
|
26
|
16
|
16
|
24
|
69.2
|
75.0
|
17
|
100.0
|
94.1
|
7
|
20.0
|
28.6
|
22
|
69.2
|
81.8
|
17
|
100.0
|
94.1
|
5
|
20.0
|
40.0
|
CTCF (35 bp)
|
267
|
187
|
192
|
300
|
83.1
|
74.0
|
198
|
98.4
|
92.9
|
102
|
47.5
|
37.3
|
298
|
85.0
|
76.2
|
210
|
97.9
|
89.5
|
88
|
52.0
|
44.3
|
DNase (20 bp)
|
104
|
43
|
47
|
138
|
51.0
|
38.4
|
42
|
97.7
|
100.0
|
96
|
18.0
|
11.5
|
144
|
51.9
|
37.5
|
55
|
97.9
|
83.6
|
89
|
14.0
|
9.0
|
CREB1 (2 alns)d
|
200
|
125
|
141
|
195
|
78.5
|
80.5
|
135
|
97.6
|
90.4
|
60
|
46.7
|
58.3
|
204
|
77.0
|
75.5
|
156
|
92.2
|
83.3
|
48
|
40.7
|
50.0
|
Mismatches alllowed
| | | | | | | | | | | | | | | | | | | | |
CREB1 (0 mm)
|
199
|
122
|
138
|
137
|
58.8
|
85.4
|
137
|
95.9
|
85.4
|
0
|
-
|
-
|
160
|
63.3
|
78.8
|
160
|
91.3
|
78.8
|
0
|
-
|
-
|
CREB1 (1 m m)e
|
200
|
125
|
141
|
190
|
73.0
|
76.8
|
134
|
96.8
|
90.3
|
56
|
33.3
|
44.6
|
203
|
76.0
|
74.9
|
160
|
93.6
|
82.5
|
43
|
33.9
|
46.5
|
CREB1 (2 mm)
|
199
|
124
|
137
|
245
|
80.4
|
65.3
|
133
|
97.6
|
91.0
|
112
|
52.0
|
34.8
|
251
|
81.4
|
64.5
|
159
|
96.4
|
83.0
|
92
|
48.4
|
32.6
|
CREB1 (3 mm)
|
213
|
123
|
143
|
301
|
79.2
|
53.2
|
132
|
98.4
|
90.9
|
169
|
50.0
|
23.7
|
313
|
81.7
|
52.7
|
161
|
96.4
|
83.9
|
152
|
47.6
|
19.7
|
Minimum reads/allele
| | | | | | | | | | | | | | | | | | | | |
CREB1 (2 reads)
|
301
|
178
|
199
|
486
|
73.4
|
45.5
|
187
|
97.2
|
92.5
|
299
|
39.0
|
16.1
|
515
|
75.4
|
44.1
|
228
|
95.0
|
82.9
|
287
|
37.3
|
13.2
|
CREB1 (3 reads)
|
261
|
156
|
173
|
267
|
70.1
|
68.8
|
162
|
94.9
|
91.4
|
105
|
33.3
|
33.3
|
289
|
72.8
|
65.7
|
191
|
92.5
|
83.8
|
98
|
34.1
|
30.6
|
CREB1 (4 reads)
|
230
|
142
|
159
|
218
|
71.4
|
76.0
|
148
|
95.1
|
91.2
|
70
|
33.7
|
42.6
|
235
|
74.8
|
73.2
|
175
|
92.5
|
84.0
|
60
|
35.2
|
41.7
|
CREB1 (5 reads)e
|
200
|
125
|
141
|
190
|
73.0
|
76.8
|
134
|
96.8
|
90.3
|
56
|
33.3
|
44.6
|
203
|
76.0
|
74.9
|
160
|
93.6
|
82.5
|
43
|
33.9
|
46.5
|
CREB1 (6 reads)
|
198
|
122
|
136
|
174
|
70.7
|
80.5
|
130
|
96.7
|
90.8
|
44
|
28.9
|
50.0
|
188
|
73.7
|
77.7
|
153
|
93.4
|
83.0
|
35
|
30.6
|
54.3
|
CREB1 (7 reads)
|
173
|
109
|
123
|
154
|
72.8
|
81.8
|
116
|
97.2
|
91.4
|
38
|
31.2
|
52.6
|
167
|
75.7
|
78.4
|
138
|
92.7
|
82.6
|
29
|
34.0
|
58.6
|
CREB1 (8 reads)
|
157
|
100
|
111
|
141
|
72.0
|
80.1
|
107
|
97.0
|
90.7
|
34
|
28.1
|
47.1
|
148
|
75.2
|
79.7
|
124
|
92.8
|
83.1
|
24
|
32.6
|
62.5
|
CREB1 (9 reads)
|
144
|
91
|
101
|
130
|
72.2
|
80.0
|
98
|
96.7
|
89.8
|
32
|
30.2
|
50.0
|
140
|
75.7
|
77.9
|
115
|
93.1
|
81.7
|
25
|
34.9
|
60.0
|
CREB1 (10 reads)
|
124
|
80
|
88
|
117
|
74.2
|
78.6
|
88
|
96.2
|
87.5
|
29
|
34.1
|
51.7
|
125
|
76.6
|
76.0
|
102
|
92.0
|
79.4
|
23
|
38.9
|
60.9
|
CREB1 (15 reads)
|
88
|
60
|
66
|
82
|
77.3
|
82.9
|
66
|
96.7
|
87.9
|
16
|
35.7
|
62.5
|
88
|
80.7
|
80.7
|
76
|
92.4
|
80.3
|
12
|
45.5
|
83.3
|
CREB1 (20 reads)
|
63
|
47
|
52
|
64
|
84.1
|
82.8
|
53
|
97.9
|
86.8
|
11
|
43.8
|
63.6
|
67
|
88.9
|
83.6
|
60
|
96.2
|
83.3
|
7
|
54.5
|
85.7
|
Imputation Rsq threshold
| | | | | | | | | | | | | | | | | | | | |
CREB1 (Rsq > .3) e
|
200
|
125
|
-
|
190
|
73.0
|
76.8
|
134
|
96.8
|
90.3
|
56
|
33.3
|
44.6
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
CREB1 (Rsq > .4)
|
200
|
122
|
-
|
190
|
72.5
|
76.3
|
133
|
97.5
|
89.5
|
57
|
33.3
|
45.6
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
CREB1 (Rsq > .5)
|
200
|
121
|
-
|
187
|
72.5
|
77.5
|
129
|
98.3
|
92.2
|
58
|
32.9
|
44.8
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
CREB1 (Rsq > .6)
|
200
|
118
|
-
|
186
|
72.5
|
78.0
|
124
|
98.3
|
93.5
|
62
|
35.4
|
46.8
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
CREB1 (Rsq > .7)
|
200
|
117
|
-
|
185
|
72.0
|
77.8
|
123
|
98.3
|
93.5
|
62
|
34.9
|
46.8
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
CREB1 (Rsq > .8)
|
200
|
104
|
-
|
182
|
70.5
|
77.5
|
111
|
99.0
|
92.8
|
71
|
39.6
|
53.5
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
CREB1 (Rsq > .9)
|
200
|
96
|
-
|
176
|
69.5
|
79.0
|
99
|
99.0
|
96.0
|
77
|
42.3
|
57.1
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
-
|
- aComplete genotype alignments use sequencing-based genotypes bPartial genotype alignments use array-based genotypes and imputation cNo genotypes alignments use common variants (MAF > .05) from 1000 Genomes EUR dImbalances called after a second alignment using refined genotypes; known variants are variants included in the first alignment eCondition used by default by AA-ALIGNER; Nt total imbalance count, Nimp imbalances at heterozygous sites identified by imputation, Ncom imbalances at common variants, Sens, percent sensitivity, Prec, percent precision