In fact, many adjacent contigs in each supercontig overlap with each other,
or with previously unlocated bridging contigs.
In this table contigs are listed in order of supercontig and contig number,
detailing, where present, overlaps between adjacent contigs.
The orientations (+/-) of previously unlocated, inserted contigs, are shown relative to their new context.
Where overlapping contigs differ by insertion/deletion, two figures are given for the overlap length, the first for the contig listed, the second for the following contig that overlaps it.
Figures in the "Mismatches" column include unmatched terminal bases where these occur. Mismatches near contig ends are labelled "e": near contig end, or "s": near start of next contig.
Links to telomeres located by Li, W., Rehmeyer, C.J., Staben, C. & Farman, M.L. (refs 1088, 1200).
Links:
Genes in contigs, linkage maps
Chomosomal locations of autocalled genes
List of previously unlocated contigs
Maps home page
| Supercontig 1,
Linkage group VIII-R
| ||||
| Contig
|
length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 1
|
10851
|
-
|
Link
to Telomere T9
| |
| 2
|
168814
|
-
|
||
| 3
|
127977
|
536
|
0
|
|
| 230 (-)
|
5336
|
575
|
0
|
|
| 4
|
155056
|
558
|
0
|
|
| 246 (-)
|
3023
|
560
|
0
|
|
| 5
|
450355
|
513
|
0
|
|
| 186 (+)
|
10198
|
483
|
1e
|
|
| 6
|
266891
|
-
|
||
| 7
|
773302
|
-
|
||
| 8
|
49390
|
2818, 2817
|
3e
|
|
| 9
|
14258
|
-
|
||
| 10
|
175166
|
766
|
35s
|
|
| 11
|
61200
|
494
|
2s
|
|
| 180 (-)
|
11235
|
751
|
1e, 1s
|
|
| 12
|
174100
|
2695
|
2
|
|
| 13
|
249512
|
1605
|
3
|
|
| 14
|
364334
|
1751
|
0
|
|
| 15
|
178329
|
790, 791
|
18e
|
|
| 16
|
451587
|
1270
|
1e
|
|
| 17
|
347844
|
616
|
0
|
|
| 225 (-)
|
5462
|
601
|
0
|
|
| 18
|
175793
|
471
|
0
|
|
| 192 (-)
|
9030
|
574
|
0
|
|
| 19
|
71437
|
-
|
||
| 20
|
21570
|
-
|
||
| 21
|
2196
|
| ||
| Supercontig
2, Linkage group VII-R
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 175
(+)
|
19880
|
728
|
0
|
|
| 22
|
276296
|
641
|
0
|
|
| 224
(-)
|
5623
|
1214, 1213
|
11e
|
|
| 23
|
67024
|
943
|
0
|
|
| 213
(-)
|
6639
|
226, 227
|
13e
|
|
| 24
|
43525
|
1205
|
0
|
|
| 25
|
229102
|
353
|
0
|
|
| 182
(+)
|
10620
|
402
|
0
|
|
| 26
|
389371
|
(10)
|
0
|
(C)10 at end contig 26, (C)27 at start contig 27
doubtful
|
| 27
|
113764
|
-
|
||
| 28
|
98898
|
-
|
||
| 29
|
525887
|
488
|
40s
|
|
| 30
|
89802
|
-
|
||
| 31
|
2490
|
-
|
||
| 32
|
435990
|
-
|
||
| 33
|
2149
|
1680
|
3
|
|
| 244
(+)
|
3100
|
1316, 1317
|
23e
|
|
| 34
|
177275
|
-
|
Gypsy-1
element, with agreeing target site duplications,
forms probable bridge of 4037 nt gap.
| |
| 35
|
84073
|
73, 74
|
29e
|
|
| 36
|
96901
|
709
|
0
|
|
| 241
(-)
|
3865
|
566
|
0
|
|
| 37
|
75346
|
568
|
23e
|
|
| 38
|
233386
|
997
|
0
|
|
| 242
(+)
|
3786
|
808
|
0
|
|
| 39
|
240080
|
-
|
|
|
| 220
(+)
|
6090
|
401
|
1e
|
|
| 40
|
150763
|
1169
|
0
|
AF497720 (mnpA) overlaps
contig 40 by 1169 bp (0 mismatches) and contig 41 by 584 bp (4 mismatches)
|
| 41
|
64302
|
327
|
50e
|
|
| 42
|
99573
|
126, 128
|
21e
|
|
| 43
|
338545
|
Link
to telomere T12
| ||
| Supercontig
3, Linkage group VI-R
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 44
|
17771
|
-
|
Link
to telomere T10
| |
| 45
|
83158
|
656
|
1
|
|
| 235
(-)
|
4760
|
1009
|
0
|
|
| 46
|
103482
|
3366
|
0
|
|
| 47
|
137873
|
-
|
||
| 48
|
95913
|
894. 892
|
6e
|
|
| 227
(+)
|
5437
|
340, 341
|
13e, 3s
|
|
| 49
|
206454
|
1542
|
0
|
|
| 50
|
47652
|
904
|
1s
|
|
| 189
(-)
|
10019
|
914
|
3s
|
|
| 51
|
1114266
|
-
|
||
| 52
|
82934
|
1315
|
0
|
|
| 53
|
51172
|
763
|
0
|
|
| 231
(+)
|
5185
|
512
|
0
|
|
| 54
|
183474
|
1612
|
0
|
|
| 55
|
492661
|
-
|
Simple
sequences at end contig 55 and start contig 56
| |
| 56
|
45063
|
3028
|
128s
|
|
| 57
|
28094
|
1366
|
0
|
|
| 58
|
83422
|
|||
| Supercontig
4, Linkage group II-R
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 59
|
177453
|
740, 741
|
3s
|
Link
to telomere T4
|
| 222 (+)
|
5781
|
474
|
0
|
|
| 60
|
68571
|
(-)
|
476
bp overlap of I-1 elements, but 52 mismatches
| |
| 61
|
865047
|
577
|
0
|
|
| 191
(-)
|
9200
|
525
|
3
|
|
| 62
|
201480
|
330
|
4s
|
|
| 63
|
41959
|
-
|
||
| 64
|
203363
|
-
|
||
| 65
|
278071
|
-
|
||
| 66
|
88283
|
486
|
0
|
|
| 236
(-)
|
4673
|
616, 616
|
1e
|
|
| 67
|
254221
|
75
|
25e
|
|
| 68
|
250663
|
-
|
||
| 69
|
80995
|
-
|
||
| 70
|
41226
|
4410, 4407
|
10e
|
|
| 174
(+)
|
26679
|
-
|
||
| 71
|
8494
|
|||
| Supercontig
5, Linkage group III-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 72
|
17816
|
-
|
||
| 73
|
3923
|
-
|
||
| 74
|
12387
|
-
|
||
| 75
|
213493
|
-
|
|
Possible
I-1 retrotransposon bridge of 3467 nt gap
|
| 76
|
153210
|
-
|
||
| 77
|
132523
|
359
|
0
|
|
| 179
(-)
|
11756
|
657, 658
|
1e, 5s
|
|
| 78
|
353456
|
584
|
0
|
|
| 238
(+)
|
4644
|
287, 288
|
33
|
|
| 79
|
209053
|
1847
|
5
|
Mismatches clustered in middle of overlap
|
| 80
|
335440
|
444
|
0
|
|
| 201
(-)
|
7389
|
1628
|
0
|
|
| 81
|
156263
|
698
|
2
|
|
| 183
(-)
|
10603
|
640
|
2s
|
|
| 82
|
44985
|
-
|
||
| 83
|
55015
|
995
|
2e
|
|
| 233
(+)
|
4981
|
953
|
1s
|
|
| 84
|
621812
|
-
|
||
| 85
|
34531
|
-
|
||
| 86
|
112247
|
Link
to telomere T11
| ||
|
Central fragment of supercontig 6 (now 6a), Linkage group V.
Displaced by finding that telomeric contig 216 overlaps contig 91,
and by telomere location by the methods of Li et al. 2005 (ref. 1088).
Probably flanked by centromere and nucleolus organizer
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 87
|
12990
|
-
|
||
| 88
|
183820
|
-
|
||
| 89
|
282268
|
-
|
||
| 90
|
3363
|
-
|
||
| Supercontig
6b, linkage group V-R
| ||||
| 226
(+)
|
5454
|
-
|
|
Telomere
T15 at start
|
| Contig 92
shows links to TelContig complex TC11, probably
to the remaining unattached telomere: T15 on contig 226.
| ||||
| 92
|
62660
|
4191, 4190
|
1
|
|
| 210
(-)
|
6735
|
619
|
0
|
|
| 93
|
340023
|
1500
|
0
|
|
| 94
|
523724
|
4545, 4546
|
1
|
|
| 95
|
103820
|
1223
|
0
|
4
unmatched bp at end contig 95
|
| 96
|
98894
|
1303
|
0
|
|
| 199
(+)
|
7686
|
516
|
0
|
|
| 97
|
24746
|
620
|
4
|
|
| 195
(+)
|
8077
|
825
|
0
|
|
| 98
|
565485
|
|||
| Supercontig
7, Linkage group I-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 99
|
2005
|
-
|
||
| 100
|
337251
|
-
|
||
| 101
|
209568
|
739
|
1e, 1s
|
|
| 194
(+)
|
8226
|
644
|
0
|
|
| 102
|
132643
|
1881
|
2e
|
Mismatches
near end of contig 102
|
| 103
|
69272
|
1605
|
0
|
|
| 104
|
297769
|
1228
|
3
|
|
| 207
(+)
|
6880
|
754
|
0
|
|
| 105
|
277183
|
329
|
0
|
|
| 204
(+)
|
6994
|
680
|
0
|
|
| 106
|
67855
|
297
|
1, 5e
|
|
| 107
|
444822
|
15
|
2e
|
|
| 208
(-)
|
6838
|
734, 735
|
1e
|
|
| 108
|
352786
|
Link
to telomere T7
| ||
| Supercontig
8, linkage group I-R
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 109
|
233950
|
623
|
1s
|
|
| 234
(-)
|
4876
|
1211
|
0
|
|
| 110
|
298245
|
1371
|
0
|
|
| 111
|
62418
|
-
|
||
| 112
|
353724
|
-
|
||
| 113
|
316066
|
652, 653
|
1e
|
|
| 237
(-)
|
4650
|
542
|
0
|
|
| 114
|
25936
|
1657
|
0
|
|
| 187
(-)
|
10087
|
2576
|
0
|
|
| 115
|
127320
|
829, 830
|
2e
|
|
| 181
(+)
|
10660
|
2263, 2261
|
38s
|
|
| 116
|
56802
|
Link
to telomere T14
| ||
| Supercontig
9, Linkage group IV-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 117
|
274575
|
-
|
|
Possible
I-1 retrotransposon bridge of 1050 nt gap
|
| 211
(+)
|
6721
|
711
|
0
|
|
| 118
|
105880
|
|
| |
| 119
|
137987
|
-
|
| |
| 120
|
3924
|
-
|
||
| 121
|
13722
|
-
|
AMA-1
sequence and MATE-1b (DNA-3_AN) transposon
bridge 3398 nt gap
| |
| 122
|
214949
|
649
|
0
|
|
| 223
(+)
|
5626
|
815
|
0
|
|
| 123
|
128436
|
1631
|
0
|
|
| 205
(-)
|
6930
|
530
|
0
|
|
| 124
|
55685
|
1311
|
0
|
|
| 125
|
32723
|
480
|
6, 30s
|
|
| 126
|
40772
|
-
|
||
| 127
|
138927
|
-
|
||
| 128
|
280307
|
Link
to telomere T2
| ||
| Supercontig
10, Linkage group IV-R
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 129
|
627835
|
-
|
||
| 130
|
308583
|
-
|
-
|
|
| 131
|
116788
|
1713
|
1s
|
|
| 132
|
254738
|
-
|
Gypsy-1
element with matching target site duplications forms
probable bridge of 2943 bp gap
| |
| 133
|
81213
|
Link
to telomere T13
| ||
| Supercontig
11, Linkage group II-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 134
|
78670
|
-
|
Telomere
T6 at start
| |
| 135
|
301041
|
-
|
||
| 136
|
31127
|
1218
|
0
|
|
| 232
(+)
|
5001
|
610
|
0
|
|
| 137
|
32282
|
654
|
6s
|
|
| 193
(+)
|
8744
|
895, 896
|
7e
|
|
| 138
|
39791
|
-
|
contig 138
end and contig 139 start are simple sequences
| |
| 139
|
347029
|
760, 757
|
3e
|
|
| 215
(+)
|
6468
|
613
|
0
|
|
| 140
|
26834
|
618
|
0
|
|
| 203
(+)
|
7055
|
1060
|
0
|
|
| 141
|
203328
|
3978, 3977
|
27e, 1s
|
|
| 190
(+)
|
9210
|
170
|
0
|
|
| 142
|
43730
|
(-)
|
I-1
element putatively bridges 3262 bp gap
| |
| 143
|
30509
|
507. 511
|
46
|
|
| 144
|
72448
|
670
|
0
|
|
| 229
(-)
|
5381
|
855
|
0
|
|
| 145
|
176570
|
|||
| Supercontig
12, Linkage group V-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 146
|
11447
|
-
|
Link
to telomere T8
| |
| 147
|
5126
|
38
|
0
|
Doubtful:
overlap is Gypsy-1 element, but target-site duplications
unmatched.
|
| 148
|
4102
|
|||
| 149
|
38673
|
-
|
| |
| 150
|
109819
|
-
|
||
| 151
|
72894
|
939, 440
|
3e
|
|
| 212
(+)
|
6710
|
1368, 1369
|
1e
|
|
| 152
|
53749
|
-
|
||
| 153
|
403022
|
789
|
0
|
|
| 196
(-)
|
8076
|
2654, 2657
|
3
|
|
| 154
|
34335
|
5053, 5052
|
2
|
|
| 155
|
40523
|
-
|
AJ575188 (azgA) overlaps
contig 155 by 385 bp and contig 156 by 2628 bp, with 0 mismatches
| |
| 156
|
11675
|
-
|
|
|
| 157
|
136262
|
|||
| Supercontig
13, Linkage group III-R
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 158
|
283337
|
605
|
0
|
Link
to telomere T1
|
| 209
(-)
|
6773
|
661
|
0
|
|
| 159
|
58286
|
1821
|
0
|
|
| 160
|
146980
|
864, 863
|
7s
|
|
| 214
(-)
|
6579
|
621, 620
|
1s
|
|
| 161
|
266267
|
918
|
0
|
|
| 198
(+)
|
7688
|
772
|
0
|
|
| 162
|
65002
|
-
|
|
34 nt gap to contig 163 bridged by PCR fragment
(ref. 1096) after deletion of 36 incorrect bases from ends of both contigs
|
| 163
|
91924
|
|||
| Supercontig
14, Linkage group VII-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 164
|
150254
|
633
|
0
|
|
| 176
(+)
|
15731
|
537
|
0
|
|
| 165
|
114598
|
2911, 2907
|
5, 1s
|
|
| 178
(+)
|
12319
|
663
|
0
|
|
| 166
|
41526
|
724, 727
|
5s
|
|
| 167
|
41972
|
-
|
||
| 168
|
229305
|
1586, 1585
|
4s
|
|
| 219
(+)
|
6367
|
504
|
0
|
|
| 200
(+)
|
7501
|
Telomere
T5 at end
| ||
| Supercontig
15, Linkage group VI-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 169
|
351151
|
473
|
0
|
|
| 206
(+)
|
6924
|
860
|
0
|
|
| 170
|
216503
|
Ends
in telomere T3
| ||
|
Supercontig 16, Linkage group VIII-L
| ||||
| Contig
|
Length
|
Overlap
with next contig |
Mismatches
in overlap |
Comment
|
| 216(-)
|
6436
|
3852
|
6, 15e
|
Telomere
T16 at start.
|
| 91
|
6778
|
-
|
| |
| 171
|
24092
|
-
|
| |
| 172
|
523550
|
-
|
||
| 173
|
11633
|
|||
List of previously unlocated contigs
Chomosomal locations of autocalled genes
Genes in contigs and linkage maps
Maps home page