Table 3.
Summary of salient features of T. thermophila Cbs clades.
DOI: http://dx.doi.org/10.7554/eLife.19090.010
|
Cbs clade |
Cbs Members 1 |
Expect value range |
Tandem duplications (repeat size) |
Number of NMCs 2 |
Inter-chromosomal duplications |
|---|---|---|---|---|---|
|
1L-1 |
1L-1 to 1L-5 |
E-22 to E-48 3 |
144 bp 4 |
4 |
|
|
1L-16 |
1L-16, 4R-24 |
E-47 |
0 |
1L-4R 5 |
|
|
1L-17 |
1L-17, 1L-18, 1L-19, 4R-25 |
E-18 to E-46 3 |
45 bp |
2 6 |
1L-4R 5 |
|
1L-20 7 |
1L-20, 3L-14 |
E-14 |
0 |
1L-3L |
|
|
1L-28 |
1L-28, 1L-29 |
E-18 |
530 bp |
1 |
|
|
1R-1 |
1R-1 to 1R-7, 2L-2, XX-1, XX-3 |
E-21 to E-178 |
13.6 Kb |
At least 8 |
1R-2L |
|
1R-35 8 |
1R-35, 1R-36 |
E-139 |
469 bp |
1 |
|
|
1R-37 8 |
1R-37, 1R-38 |
E-18 |
796 bp |
1 |
|
|
2R-1 |
2R-1, 2R-2 |
E-66 |
605 bp |
1 |
|
|
3L-3 |
3L-3, 3L-29 |
E-175 |
0 |
||
|
3L-4 |
3L-4, 4L-2, 4L-3 |
E-48 to E-85 |
3.8 Kb |
1 next to 3L-4, 1 between 4L-2 and 4L-3 |
3L-4L |
|
4R-3 |
4R-3 to 4R-7, 4R-38, XX-2, XX-4 |
E-49 to E-171 |
17.5 Kb |
At least 6 |
|
|
5L-9 |
5L-9, 5L-10, 5L-11 |
E-58 to E-76 |
10.4 Kb |
2 |
|
|
5R-5 |
5R-5, 5R-6 |
E-22 3 |
53 bp |
1 6 |
|
|
5R-14 7 |
5R-14, 5R-15 |
E-14 |
84 bp |
1 6 |
All clades are described in greater detail in Supplementary file 2E.
1 Exact MIC supercontig locations of each Cbs are given in Supplementary file 2A.
2 The number of predicted non-maintained chromosomes (NMCs) is one less than the number of repeat units.
3 Shorter query length – expected values are potentially higher than for most alignments, which are based on a query length of 415 bp, for the same degree of sequence conservation.
4 Average repeat unit length is artificially increased because an additional repeat unit containing a mutationally disabled Cbs between Cbs 1L-4 and Cbs 1L-5.
5 Simultaneous duplication event; see Supplementary file 2E.
6 These NMCs may be too short to be telomerized after chromosome breakage.
7 Support for these clades is weaker than for the others; see Supplementary file 2E.
8 This pair of adjacent clades may be a single clade.