Additional File 5. List of Ks3 mtDNA sequences showing homology to ctDNA sequences
mtDNA sequence
MC coordinatesa
Size(bp)
995-1157
15883-15935
15957-16203
16209-16370
24554-24633
24754-25076
26384-24676
46577-46899
47148-47173
52599-52636
63707-64034
64263-64289
65942-65974
66091-66163
66259-66327
66712-66786
66832-66950
67288-67333
67417-67502
163
53
247
162
80
323
93
323
26
38
328
27
33
73
69
75
119
46
86
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
62057-62218
35550-35602
35647-35901
35916-36072
76754-76833
77024-77353
18662-18754
98568-98895
39956-39981
21305-21268
35245-34918
48098-48072
92513-92481
92410-92337
92240-92172
92118-92044
91997-91879
91535-91490
91408-91323
Size(bp)
162
53
255
157
80
330
93
328
26
38
328
27
33
74
69
75
119
46
86
1
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
Size(bp)
116326-115999
328
122381-122413
122484-122557
122654-122722
122776-122850
122897-123015
123359-123404
123486-123571
33
74
69
75
119
46
86
Nucleotide
sequence
Identity (%)
92
92
90
85
91
82
95
92
100
97
96
100
96
87
85
85
91
91
91
Additional File 5.
(continued)
mtDNA sequence
MC coordinates
Size(bp)
67795-67854
70800-70831
74031-74084
81506-81568
119368-119399
120487-120666
122698-124675
137002-137293
137310-138413
138456-141240
141279-141320
148407-148492
155925-155997
165151-165180
165234-165267
165388-165469
173388-173432
179765-179931
60
32
54
63
32
180
1978
292
1104
2785
42
86
73
30
34
82
45
167
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
91120-91061
82945-82976
83963-84016
109526-109592
49041-49072
68077-68256
39110-41098
89045-88744
88716-87613
87569-84780
84752-84711
98896-98811
52107-52035
64290-64261
64084-64051
63927-63846
51183-51225
111403-111572
Size(bp)
60
32
54
67
32
180
1989
302
1104
2790
42
86
73
30
34
82
43
170
2
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
123774-123833
131949-131918
130931-130878
Size(bp)
125849-126150
126178-127281
127325-130114
130142-130183
115998-116083
302
1104
2790
42
86
60
32
54
Nucleotide
sequence
Identity (%)
88
96
98
85
96
95
97
89
98
98
100
98
94
96
100
96
91
88
Additional File 5.
(continued)
mtDNA sequence
MC coordinates
Size(bp)
217647-218762
218991-219017
220670-220702
220819-220891
220987-221055
221440-221514
221560-221678
222016-222061
222145-222230
222523-222582
225528-225559
240030-240164
250326-250352
280975-281157
281164-281223
281306-281342
281500-281633
282712-282818
282834-282921
1116
27
33
73
69
75
119
46
86
60
32
135
27
183
60
37
134
107
88
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
36037-34918
48098-48072
92513-92418
92410-92337
92240-92172
92118-92044
91997-91879
91535-91490
91408-91323
91120-91061
82945-82976
75509-75643
10289-10315
44967-45148
47629-47688
47776-47812
48000-48133
43932-44039
44062-44149
Size(bp)
1120
27
33
74
69
75
119
46
86
60
32
135
27
182
60
37
134
108
88
3
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
122381-122413
122484-122557
122654-122722
122776-122850
122897-123015
123359-123404
123486-123571
123774-123833
131949-131918
Size(bp)
33
74
69
75
119
46
86
60
32
Nucleotide
sequence
Identity (%)
97
100
96
87
85
85
91
91
91
88
96
94
96
91
93
91
94
87
94
Additional File 5. (continued)
mtDNA sequence
MC coordinates
Size(bp)
287781-287827
288399-288458
289490-289534
289578-289660
289690-289783
290150-290397
300922-300982
305871-306095
306103-306249
309287-309310
310874-310905
321900-321957
358965-359011
359583-359642
360674-360718
360762-360844
360874-360967
361334-361581
372106-372166
47
60
45
83
94
248
61
225
147
24
32
58
47
60
45
83
94
248
61
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
95276-95322
95907-95966
96602-96646
96683-96765
96805-96898
97281-97528
35290-35230
111368-111144
111119-110973
67935-67912
33288-33319
34309-34366
95276-95322
95907-95966
96602-96646
96683-96765
96805-96898
97281-97528
35290-35230
Size(bp)
47
60
45
83
94
248
61
225
147
24
32
58
47
60
45
83
94
248
61
4
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
119618-119572
118987-118928
118292-118248
118211-118129
118089-117996
117613-117366
Size(bp)
119618-119572
118987-118928
118292-118248
118211-118129
118089-117996
117613-117366
47
60
45
83
94
248
47
60
45
83
94
248
Nucleotide
sequence
Identity (%)
93
85
95
83
88
81
95
90
90
100
93
96
93
85
95
83
88
81
95
Additional File 5.
mtDNA
sequence
MC coordinates
377055-377279
377287-377433
380471-380494
382058-382089
393084-393141
428443-428515
435949-436034
443121-443162
443201-445985
446028-447131
446806-446869
447148-447439
459766-461743
463775-463954
465042-465073
502873-502935
510357-510410
513610-513641
(continued)
Size(bp)
225
147
24
32
58
73
86
42
2785
1104
64
292
1978
180
32
63
54
32
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
111368-111144
111119-110973
67935-67912
33288-333319
34309-34366
52035-52107
98811-98896
84711-84752
84780-87569
87613-88716
14700-14763
88744-89045
41098-39110
68256-68077
49072-49041
109592-109526
84016-83963
82976-82945
Size(bp)
225
147
24
32
58
73
86
42
2790
1104
64
302
1989
180
32
67
54
32
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
Size(bp)
116083-115998
130183-130142
130114-127325
127281-126178
86
42
2790
1104
126150-125849
302
130878-130931
131918-131949
54
32
5
Nucleotide
sequence
Identity (%)
90
90
100
93
96
94
98
100
98
98
90
89
97
95
96
85
98
96
Additional File 5.
(continued)
mtDNA sequence
MC coordinates
Size(bp)
516587-516646
516939-517024
517108-517153
517491-517609
517655-517729
518114-518182
518278-518350
518467-518499
520152-520178
520407-521522
524144-524172
530257-530314
530373-530438
566082-566141
566434-566519
566603-566648
566986-567104
567150-567224
60
86
46
119
75
69
73
33
27
1116
29
58
66
60
86
46
119
75
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
91061-91120
91323-91408
91490-91535
91879-91997
92044-92118
92172-92240
92337-92410
92481-92513
48072-48098
34918-36037
34513-34485
35696-35639
35580-35515
91061-91120
91323-91408
91490-91535
91879-91997
92044-92118
Size(bp)
60
86
46
119
75
69
74
33
27
1120
29
58
66
60
86
46
119
75
6
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
123833-123774
123571-123486
123404-123359
123015-122897
122850-122776
122722-122654
122557-122484
122413-122381
Size(bp)
123833-123774
123571-123486
123404-123359
123015-122897
122850-122776
60
86
46
119
75
60
86
46
119
75
69
74
33
Nucleotide
sequence
Identity (%)
88
91
91
91
85
85
87
96
100
97
100
89
89
88
91
91
91
85
Additional File 5.
(continued)
mtDNA sequence
MC coordinates
Size(bp)
567609-567677
567773-567845
567962-567994
569647-569673
569902-571017
573639-573667
579752-579809
579868-579933
628871-628902
631535-632138
637852-637983
647199-647387
69
73
33
27
1116
29
58
66
32
604
132
189
Homologous ctDNA
sequence(CopyⅠ)
ctDNA coordinates
92172-92240
92337-92410
92481-92513
48072-48098
34918-36037
34513-34485
35696-35639
35580-35515
49041-49072
90639-90036
93428-93297
61844-62032
Size(bp)
69
74
33
27
1120
29
58
66
32
604
132
189
a
Homologous ctDNA
sequence(Copy Ⅱ)
ctDNA coordinates
122722-122654
122557-122484
122413-122381
Size(bp)
124255-124858
121466-121597
604
132
69
74
33
Nucleotide
sequence
Identity (%)
85
87
96
100
97
100
89
89
96
98
94
88
Boldface: the wheat ctDNA showed specific homology to the partial pieces of these segments or entire segments in Ks3 mtDNA over Km3.
Because a 14-bp sequence overlap between two segments of the mtDNA coordinates: 45677-46812 and 46799-46899, total size of 25624 bp
is 14-bp smaller than the sum of all the segments (25,638 bp) in the third column in the table.
7