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Line color code:
- White: overlap with immediately succeeding clone
- Green: overlap with clone in same contig
- Pink: overlap with clone in same chromosome, different contig
- Red: overlap with clone on different chromosome
- Yellow: overlap with clone not used in assembly
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| Links | Contig1 | Acc1 | Start1 | Phs | Chr2 | Contig2 | Acc2 | Start2 | Phs | Strong Overlap | Medium Overlap | Weak Overlap | Total Overlap |
| S/G/Y/R/B/O |
NT_030188 | AP001580 | 39795231 | 3 | chr21 | NT_030188 | AP001618 | 39800054 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001618 | 39800054 | 3 | chr21 | NT_030188 | AP001619 | 39820351 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001618 | 39800054 | 3 |   |   | AL163290 | 37683508 | 3 | 21525 | 0 | 0 | 21525 |
| S/G/Y/R/B/O |
NT_030188 | AP001618 | 39800054 | 3 |   |   | AP001745 | 37683508 | 3 | 21525 | 0 | 0 | 21525 |
| S/G/Y/R/B/O |
NT_030188 | AP001619 | 39820351 | 3 | chr21 | NT_030188 | AP001620 | 39981383 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001619 | 39820351 | 3 |   |   | AC027485 | 37683508 | 1 | 20168 | 41691 | 17631 | 79490 |
| S/G/Y/R/B/O |
NT_030188 | AP001619 | 39820351 | 3 |   |   | AL163290 | 37683508 | 3 | 161225 | 0 | 0 | 161225 |
| S/G/Y/R/B/O |
NT_030188 | AP001619 | 39820351 | 3 |   |   | AP001745 | 37683508 | 3 | 161225 | 0 | 0 | 161225 |
| S/G/Y/R/B/O |
NT_030188 | AP001620 | 39981383 | 3 | chr21 | NT_030188 | AP001621 | 40051373 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001620 | 39981383 | 3 |   |   | AC020557 | 37683508 | 1 | 75081 | 0 | 0 | 75081 |
| S/G/Y/R/B/O |
NT_030188 | AP001620 | 39981383 | 3 |   |   | AC027485 | 37683508 | 1 | 13884 | 23658 | 10281 | 47823 |
| S/G/Y/R/B/O |
NT_030188 | AP001620 | 39981383 | 3 |   |   | AL163290 | 37683508 | 3 | 95449 | 0 | 0 | 95449 |
| S/G/Y/R/B/O |
NT_030188 | AP001620 | 39981383 | 3 |   |   | AP001745 | 37683508 | 3 | 95449 | 0 | 0 | 95449 |
| S/G/Y/R/B/O |
NT_030188 | AP001621 | 40051373 | 3 | chr21 | NT_030188 | AP001622 | 40175063 | 3 | 69426 | 0 | 0 | 69426 |
| S/G/Y/R/B/O |
NT_030188 | AP001621 | 40051373 | 3 |   |   | AC020557 | 37683508 | 1 | 60744 | 2047 | 5495 | 68286 |
| S/G/Y/R/B/O |
NT_030188 | AP001621 | 40051373 | 3 |   |   | AL163290 | 37683508 | 3 | 100737 | 0 | 0 | 100737 |
| S/G/Y/R/B/O |
NT_030188 | AP001621 | 40051373 | 3 |   |   | AP001745 | 40175063 | 3 | 100737 | 0 | 0 | 100737 |
| S/G/Y/R/B/O |
NT_030188 | AP001622 | 40175063 | 3 | chr21 | NT_030188 | AP001623 | 40255388 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001622 | 40175063 | 3 |   |   | AC015555 | 40175063 | 3 | 75992 | 0 | 0 | 75992 |
| S/G/Y/R/B/O |
NT_030188 | AP001622 | 40175063 | 3 |   |   | AC020557 | 40175063 | 1 | 55245 | 2324 | 2039 | 59608 |
| S/G/Y/R/B/O |
NT_030188 | AP001622 | 40175063 | 3 |   |   | AL163291 | 40175063 | 3 | 124581 | 0 | 0 | 124581 |
| S/G/Y/R/B/O |
NT_030188 | AP001622 | 40175063 | 3 |   |   | AP001746 | 40051373 | 3 | 124581 | 0 | 0 | 124581 |
| S/G/Y/R/B/O |
NT_030188 | AP001623 | 40255388 | 3 | chr21 | NT_030188 | AP001624 | 40392029 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001623 | 40255388 | 3 |   |   | AB038162 | 40051373 | 3 | 57000 | 0 | 0 | 57000 |
| S/G/Y/R/B/O |
NT_030188 | AP001623 | 40255388 | 3 |   |   | AC015555 | 40051373 | 3 | 125921 | 0 | 0 | 125921 |
| S/G/Y/R/B/O |
NT_030188 | AP001623 | 40255388 | 3 |   |   | AL163291 | 40051373 | 3 | 157738 | 0 | 0 | 157738 |
| S/G/Y/R/B/O |
NT_030188 | AP001623 | 40255388 | 3 |   |   | AP001746 | 40051373 | 3 | 157738 | 0 | 0 | 157738 |
| S/G/Y/R/B/O |
NT_030188 | AP001624 | 40392029 | 3 | chr21 | NT_030188 | AP001625 | 40472336 | 3 | 26377 | 0 | 0 | 26377 |
| S/G/Y/R/B/O |
NT_030188 | AP001624 | 40392029 | 3 |   |   | AL163291 | 40051373 | 3 | 106963 | 0 | 0 | 106963 |
| S/G/Y/R/B/O |
NT_030188 | AP001624 | 40392029 | 3 |   |   | AP001746 | 40472336 | 3 | 106963 | 0 | 0 | 106963 |
| S/G/Y/R/B/O |
NT_030188 | AP001625 | 40472336 | 3 | chr21 | NT_030188 | AP001626 | 40576581 | 3 | 37543 | 0 | 0 | 37543 |
| S/G/Y/R/B/O |
NT_030188 | AP001625 | 40472336 | 3 |   |   | AC064818 | 40472336 | 1 | 46697 | 2675 | 9833 | 59205 |
| S/G/Y/R/B/O |
NT_030188 | AP001625 | 40472336 | 3 |   |   | AL163292 | 40472336 | 3 | 106779 | 0 | 0 | 106779 |
| S/G/Y/R/B/O |
NT_030188 | AP001625 | 40472336 | 3 |   |   | AP001747 | 40576581 | 3 | 106779 | 0 | 0 | 106779 |
| S/G/Y/R/B/O |
NT_030188 | AP001626 | 40576581 | 3 | chr21 | NT_030188 | AP001627 | 40684516 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001626 | 40576581 | 3 |   |   | AC064818 | 68671548 | 1 | 93432 | 2660 | 7471 | 103563 |
| S/G/Y/R/B/O |
NT_030188 | AP001626 | 40576581 | 3 |   |   | AL163292 | 68671548 | 3 | 145432 | 0 | 0 | 145432 |
| S/G/Y/R/B/O |
NT_030188 | AP001626 | 40576581 | 3 |   |   | AP001747 | 40472336 | 3 | 145432 | 0 | 0 | 145432 |
| S/G/Y/R/B/O |
NT_030188 | AP001627 | 40684516 | 3 | chr21 | NT_030188 | AP001628 | 40762053 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001627 | 40684516 | 3 |   |   | AC064818 | 40472336 | 1 | 36650 | 0 | 0 | 36650 |
| S/G/Y/R/B/O |
NT_030188 | AP001627 | 40684516 | 3 |   |   | AL163292 | 40472336 | 3 | 125376 | 0 | 0 | 125376 |
| S/G/Y/R/B/O |
NT_030188 | AP001627 | 40684516 | 3 |   |   | AP001747 | 40472336 | 3 | 125376 | 0 | 0 | 125376 |
| S/G/Y/R/B/O |
NT_030188 | AP001628 | 40762053 | 3 | chr21 | NT_030188 | AP001629 | 40822800 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001628 | 40762053 | 3 |   |   | AB039887 | 40472336 | 3 | 18600 | 0 | 0 | 18600 |
| S/G/Y/R/B/O |
NT_030188 | AP001628 | 40762053 | 3 |   |   | AL163292 | 40472336 | 3 | 101837 | 0 | 0 | 101837 |
| S/G/Y/R/B/O |
NT_030188 | AP001628 | 40762053 | 3 |   |   | AL163293 | 40472336 | 3 | 13985 | 0 | 0 | 13985 |
| S/G/Y/R/B/O |
NT_030188 | AP001628 | 40762053 | 3 |   |   | AP001747 | 40472336 | 3 | 101837 | 0 | 0 | 101837 |
| S/G/Y/R/B/O |
NT_030188 | AP001628 | 40762053 | 3 |   |   | AP001748 | 40472336 | 3 | 13985 | 0 | 0 | 13985 |
| S/G/Y/R/B/O |
NT_030188 | AP001629 | 40822800 | 3 | chr21 | NT_030188 | AP001630 | 40904099 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001629 | 40822800 | 3 |   |   | AB038163 | 40472336 | 3 | 18500 | 0 | 0 | 18500 |
| S/G/Y/R/B/O |
NT_030188 | AP001629 | 40822800 | 3 |   |   | AL163293 | 40472336 | 3 | 89435 | 0 | 0 | 89435 |
| S/G/Y/R/B/O |
NT_030188 | AP001629 | 40822800 | 3 |   |   | AP001748 | 40472336 | 3 | 89435 | 0 | 0 | 89435 |
| S/G/Y/R/B/O |
NT_030188 | AP001630 | 40904099 | 3 | chr21 | NT_030188 | AP001631 | 41055069 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001630 | 40904099 | 3 |   |   | AC020600 | 40472336 | 1 | 48461 | 8079 | 8401 | 64941 |
| S/G/Y/R/B/O |
NT_030188 | AP001630 | 40904099 | 3 |   |   | AF042836 | 40472336 | 3 | 27969 | 0 | 0 | 27969 |
| S/G/Y/R/B/O |
NT_030188 | AP001630 | 40904099 | 3 |   |   | AL163293 | 40472336 | 3 | 151846 | 0 | 0 | 151846 |
| S/G/Y/R/B/O |
NT_030188 | AP001630 | 40904099 | 3 |   |   | AP001748 | 40472336 | 3 | 151846 | 0 | 0 | 151846 |
| S/G/Y/R/B/O |
NT_030188 | AP001631 | 41055069 | 3 | chr21 | NT_030188 | AP001632 | 41152692 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001631 | 41055069 | 3 |   |   | AC020600 | 40472336 | 1 | 35291 | 8388 | 12607 | 56286 |
| S/G/Y/R/B/O |
NT_030188 | AP001631 | 41055069 | 3 |   |   | AF042836 | 40472336 | 3 | 27989 | 0 | 0 | 27989 |
| S/G/Y/R/B/O |
NT_030188 | AP001631 | 41055069 | 3 |   |   | AL163293 | 40472336 | 3 | 144287 | 0 | 0 | 144287 |
| S/G/Y/R/B/O |
NT_030188 | AP001631 | 41055069 | 3 |   |   | AP001748 | 40472336 | 3 | 144287 | 0 | 0 | 144287 |
| S/G/Y/R/B/O |
NT_030188 | AP001632 | 41152692 | 3 | chr21 | NT_030188 | AP001581 | 41172277 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_030188 | AP001632 | 41152692 | 3 |   |   | AL163294 | 40472336 | 3 | 20125 | 0 | 0 | 20125 |
| S/G/Y/R/B/O |
NT_030188 | AP001632 | 41152692 | 3 |   |   | AP001749 | 40472336 | 3 | 20125 | 0 | 0 | 20125 |
| S/G/Y/R/B/O |
NT_030188 | AP001581 | 41172277 | 3 |   |   |   |   |   |   |   |   |   |
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