Table 2.
Tandem arrays, repeat units >2 kb
| Chromo Band | Array (kb) | Unit (kb) | Copy | % Identity | CNV | Assembly | Gene/TE | ref | Hg18 coordinates |
| A) Tandem arrays with one gene per repeat unit | |||||||||
| 1q21.1 | 250.0 | 38.8 | 5 | + | Gdis, inv | AMY | [11] | chr1:103,893,838–104,143,838 | |
| 1q21.3 | 30.4 | 10.1 | 3 | >90.3% | + | LCE2 | chr1:150,897,180–150,927,534 | ||
| 1q23.3 | 33.9 | 7.4 | 4.5 | >99% | + | tRNA | chr1:159,675,041–159,708,915 | ||
| 1q42.13 | 42.1 | 2.5 | 16 | >99% | - | 5sRNA | chr1:226,809,390–226,851,530 | ||
| 4p16.1 | 42.7 | 4.7 | 9 | >99% | + | Gdis, inter (1) | DUB3 | [32] | chr4:8,935,516–8,978,292 |
| 4q35.2 | 23.8 | 3.3 | 7 | >99% | -- | Inter (2) | DUX4 | [10] | chr4:191,224,553–191,248,328 |
| 7p14.1 | 26.9 | 4.4 | 5.8 | >91% | + | TRGV | chr7:38,347,944–38,374,805 | ||
| 8p23.1 | 127.0 | 12.1 | 10 | >98% | + | DEFA | chr8:6,774,101–6,901,753 | ||
| 8q21.2 | 166.7 | 12.2 | 6 | >99% | + | Gint | Gor1 | chr8:86,744,493–86,911,178 | |
| 10q26.3 | 18.4 | 3.3 | 6 | >99% | -- | Inter (2) | DUX4 | [10] | chr10:135,328,811–135,347,195 |
| 13q21.1 | 31.1 | 6.6 | 5 | >99% | + | FLJ40296 | .chr13:56,613,947–56,645,084 | ||
| 16p11.1 | 9.5 | 1.5 | 7 | + | 5sRNA | chr16:34,837,642–34,847,159 | |||
| 17q23.3 | 59.8 | 22.9 | 3 | >95% | -- | CSH1,2 | chr17:59,292,406–59,340,026 | ||
| Xp22.31 | 10.1 | 1.9 | 5 | >95% | + | 5sRNA | chrX:9,331,977–9,342,069 | ||
| Xp11.23 | 38 | 2.5 | 15 | >99% | - | Gint | Gage4 | chrX:49,059,954–49,271,622 | |
| Xq24 | 56.0 | 4.8 | 12 | >99% | + | CT47 | [31] | chrX:119,893,246–119,948,579 | |
| Xq26.3 | 108.1 | 19.9 | 4 | >99% | + | CT45 | chrX:134,683,931–134,792,078 | ||
| Yp11.2 | 791.7 | 20.3 | 9 | >99% | + | Gint | TSPY | chrY:9,226,249–10,017,916 | |
| Yq11.223 | 55.3 | 23.6 | 2.3 | >98% | + | Intra (3) | RMBY | chrY:22,069,208–22,124,461 | |
| Yq11.223 | 46.2 | 23.6 | 2 | >98% | + | Intra (3) | RBMY | chrY:22,431,619–22,477,826 | |
| B) Tandem arrays wholly contained within a gene | |||||||||
| 1q21.1 | 66.3 | 1.5 | 41 | >97% | + | Gdis, Gprox, intra (4) | NBPF | [30] | chr1:142,869,841–142,935,173 |
| 1q21.1 | 56.1 | 1.5 | 35.7 | >95% | + | Intra (4) | NBPF | [30] | chr1:144,022,952–144,079,081 |
| 1q21.1 | 10.8 | 1.5 | 6.9 | >95% | + | Gprox, Intra(4) | NBPF | [12] | chr1:146,472,125–146,482,922 |
| 1q21.3 | 7.8 | 1.4 | 5.6 | + | HRNR | chr1:150,452,354–150,460,167 | |||
| 1q32.2 | 59.4 | 18.6 | 3 | >97% | + | CR1 | chr1:205,769,057–205,828,425 | ||
| 2q11.2 | 49.5 | 1.9 | 26.5 | 85% | - | SD, intra (5) | FLJ41632 | [40] | chr2:95,910,350–95,959,888 |
| 2q11.2 | 39.9 | 1.9 | 21.3 | 85% | + | SD, intra (5) | UNG2430 | chr2:97,208,306–97,248,230 | |
| 2q11.2 | 25.2 | 1.9 | 13.5 | 82% | + | SD, intra (5) | KIAA 1641 | chr2:97,519,639–97,544,901 | |
| 6q26 | 26.4 | 5.6 | 5 | >99% | + | SD | LPA | [32] | chr6:160,953,270–160,979,666 |
| 7q22.1 | 7.0 | 1.4 | 5.1 | 98% | - | SD | BC056606 | chr7:99,743,773–99,750,792 | |
| 8p23.1 | 47.8 | 7.1 | 6.2 | >99% | + | SD, intra (6) | AK090418 | chr8:7,098,335–7,146,182 | |
| 8p23.1 | 61.7 | 7.1 | 8 | >97% | + | SD, intra (6) | AK090418 | chr8:7,606,874–7,668,576 | |
| 8p23.1 | 23.5 | 7.7 | 3 | >97% | + | SD, intra (6) | AK090418 | chr8:7,905,630–7,929,101 | |
| 10p11.21 | 47.4 | 11.1 | 4 | >95% | + | SD | ANKRD30A | chr10:37,483,216–37,530,613 | |
| 10q26.13 | 42.0 | 2.9 | 13 | >79% | + | DMBT1 | [33] | chr10:124,329,825–124,371,833 | |
| 19q13.2 | 48.0 | 15.7 | 3 | >95% | + | FCGBP | chr19:45,056,041–45,104,055 | ||
| Yq11.223 | 17.5 | 2.4 | 7 | + | Intra (7) | Daz1 | [19] | chrY:23,706,609–23,724,156 | |
| Yq11.223 | 29.5 | 2.4 | 12 | + | Intra (7) | Daz2 | chrY:23,783,768–23,813,249 | ||
| Yq11.223 | 16.7 | 2.4 | 7 | + | Intra (7) | Daz2 | chrY:23,820,447–23,837,326 | ||
| Yq11.23 | 22.3 | 2.4 | 9 | + | Intra (7) | Daz3 | chrY:25,337,948–25,360,227 | ||
| Yq11.23 | 22.3 | 2.4 | 9 | + | Intra (7) | Daz4 | chrY:25,409,003–25,431,283 | ||
| Yq11.23 | 14.8 | 2.4 | 6 | + | Intra (7) | Daz4 | chrY:25,438,190–25,453,002 | ||
| Yq11.23 | 26.2 | 10.8 | 2.4 | + | Intra (7) | Daz1 | chrY:23,726,459–23,752,640 | ||
| C) Tandem arrays that contain gene, EST or exon | |||||||||
| 1p36.66 | 14.4 | 3.4 | 4 | >98% | + | SD | AK125248 | chr1:655,059–669,457 | |
| 2p13.2 | 28.4 | 4.9 | 5.7 | >95% | + | FLJ43987 | chr2:73,862,733–73,891,172 | ||
| 4q28.3 | 41.3 | 2.5 | 17 | >95% | + | SD, inter (8) | SST | [35] | chr4:132,864,491–132,905,799 |
| 5q13.2 | 36.9 | 21.3 | 2 | >99% | + | SD | GUSBP | chr5:69,823,338–69,860,219 | |
| 16p11.2 | 6.4 | 1.9 | 3.4 | >88% | + | SD, inter (5) | BC012355 | chr16:33,450,421–33,456,850 | |
| 7p11.2 | 7.0 | 2.4 | 3 | >87% | + | SD | Div SST | chr7:57,712,475–57,719,436 | |
| 17p11.2 | 11.1 | 2.4 | 4 | >84% | + | SD | Div SST | chr17:21,825,509–21,836,586 | |
| 20p11.1 | 16.1 | 1.9 | 8.2 | >87% | Div SST | chr20:25,781,895–25,797,997 | |||
| D) Megasatellite arrays | |||||||||
| 2q11.2 | 6.4 | 1.9 | 3.4 | >89% | - | SD, intra (5) | Mer5A1 | chr2:95,986,764–95,993,173 | |
| 2q37.1 | 28.1 | 1.5 | 18.7 | + | Mer20 | chr2:232,396,082–232,424,219 | |||
| 4p16.1 | 16.5 | 5.6 | 3 | >99% | + | Mer65A | chr4:8,673,058–8,689,560 | ||
| 4p11 | 51.4 | 6.0 | 8 | >96% | + | SD, inv, Gprox | Acro | chr4:48,976,229–49,027,623 | |
| 5p15.1 | 71.0 | 3.4 | 20 | >97% | + | SD, Inv | Charlie 2a | chr5:17,570,661–17,641,581 | |
| 7q36.1 | 10.1 | 1.7 | 5 | + | SD | HERVE | chr7:149,361,474–149,371,533 | ||
| 8p23.1 | 38.8 | 7.7 | 5 | >98% | + | SD, intra (6) | LTR5A | chr8:7,392,330–7,431,109 | |
| 8p23.1 | 12.9 | 4.7 | 3 | >94% | + | SD, intra (1) | CA | [39] | chr8:7,175,100–7,187,953 |
| 8p23.1 | 12.5 | 4.7 | 3 | >87% | + | SD, intra (1) | CA | chr8:12,023,084–12,035,607 | |
| 9q32 | 32.1 | 5.5 | 5.9 | >96% | + | L1MA7 | chr9:114,860,525–114,892,874 | ||
| 18q22.1 | 6.3 | 2.3 | 3.2 | >96% | + | L1PB4 | chr18:64,354,361–64,360,677 | ||
| 19p13.2 | 53.7 | 7.5 | 7.5 | >97% | + | Charlie 5 | chr19:8,708,195–8,761,926 | ||
| 19q13.12 | 44.5 | 2.5 | 18 | >95% | - | SD, intra (8) | SST | [35] | chr19:41,448,243–41,492,723 |
| 19q13.31 | 38.5 | 2.5 | 16 | >95% | - | SD, intra (8) | SST | [35] | chr19:42,451,366–42,489,869 |
| 19q13.32 | 54.4 | 5.4 | 10 | >98% | + | SD, intra (9) | Mer33 | chr19:53,098,557–53,152,942 | |
| 19q13.33 | 56.2 | 5.4 | 10 | >97% | + | SD, intra (9) | Mer33 | chr19:55,280,783–55,336,942 | |
| Xq23 | 51.7 | 3.0 | 17 | >99% | + | DXZ4 | [36] | chrX:114,867,433–114,919,088 | |
Assembly- Gdis- Gap at distal end of array, Gprox-Gap at proximal end of array, Gint- Gap internal to array. Inv- inversion within array. SD- array is associated with a surrounding segmental duplication (not including segmental duplications due merely to repeat unit homology within array). Intra- intrachromosomal duplication of related arrays on same chromosome Inter- Interchromosomal duplication of related arrays on different chromosomes. (1) – (9) Related arrays are grouped by number, either intra or interchromosomal, or both, as indicated.