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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_019609 | AC093519 | 90347374 | 1 | chr16 | NT_019609 | AC106745 | 90453741 | 1 | 6217 | 0 | 20614 | 26831 |
| S/G/Y/R/B/O |
NT_019609 | AC106745 | 90453741 | 1 | chr16 | NT_019609 | AC103883 | 90481055 | 1 | 0 | 0 | 457 | 457 |
| S/G/Y/R/B/O |
NT_019609 | AC106745 | 90453741 | 1 | chr16 | NT_019609 | AC074301 | 90702936 | 2 | 19881 | 2309 | 0 | 22190 |
| S/G/Y/R/B/O |
NT_019609 | AC106745 | 90453741 | 1 | chr16 | NT_019609 | AC092726 | 90664653 | 1 | 50871 | 0 | 4359 | 55230 |
| S/G/Y/R/B/O |
NT_019609 | AC106745 | 90453741 | 1 |   |   | AC009050 | 90453741 | 1 | 43770 | 10179 | 29741 | 83690 |
| S/G/Y/R/B/O |
NT_019609 | AC103883 | 90481055 | 1 | chr16 | NT_019609 | AC009051 | 90507524 | 3 | 0 | 0 | 457 | 457 |
| S/G/Y/R/B/O |
NT_019609 | AC103883 | 90481055 | 1 | chr16 | NT_019609 | AC010531 | 90766689 | 3 | 99241 | 11852 | 13604 | 124697 |
| S/G/Y/R/B/O |
NT_019609 | AC103883 | 90481055 | 1 | chr16 | NT_019609 | AC074301 | 90702936 | 2 | 20334 | 0 | 2162 | 22496 |
| S/G/Y/R/B/O |
NT_019609 | AC103883 | 90481055 | 1 | chr16 | NT_019609 | AC105429 | 90941743 | 3 | 58760 | 2955 | 1060 | 62775 |
| S/G/Y/R/B/O |
NT_019609 | AC009051 | 90507524 | 3 | chr16 | NT_019609 | AC092726 | 90664653 | 1 | 108865 | 0 | 39619 | 148484 |
| S/G/Y/R/B/O |
NT_019609 | AC009051 | 90507524 | 3 | chr16 | NT_019609 | AC074301 | 90702936 | 2 | 19881 | 2308 | 0 | 22189 |
| S/G/Y/R/B/O |
NT_019609 | AC009051 | 90507524 | 3 | chr16 | NT_019609 | AC084815 | 90670248 | 1 | 27024 | 2231 | 0 | 29255 |
| S/G/Y/R/B/O |
NT_019609 | AC009051 | 90507524 | 3 |   |   | AC009050 | 90453741 | 1 | 102400 | 15035 | 24701 | 142136 |
| S/G/Y/R/B/O |
NT_019609 | AC092726 | 90664653 | 1 | chr16 | NT_019609 | AC084815 | 90670248 | 1 | 50565 | 5521 | 1163 | 57249 |
| S/G/Y/R/B/O |
NT_019609 | AC092726 | 90664653 | 1 | chr16 | NT_019609 | AC106745 | 90453741 | 1 | 50871 | 0 | 4359 | 55230 |
| S/G/Y/R/B/O |
NT_019609 | AC092726 | 90664653 | 1 |   |   | AC009050 | 90453741 | 1 | 82871 | 12182 | 27788 | 122841 |
| S/G/Y/R/B/O |
NT_019609 | AC084815 | 90670248 | 1 | chr16 | NT_019609 | AC074301 | 90702936 | 2 | 12913 | 12789 | 4030 | 29732 |
| S/G/Y/R/B/O |
NT_019609 | AC084815 | 90670248 | 1 | chr16 | NT_019609 | AC009051 | 90507524 | 3 | 27024 | 2231 | 0 | 29255 |
| S/G/Y/R/B/O |
NT_019609 | AC084815 | 90670248 | 1 | chr16 | NT_019609 | AC010531 | 90766689 | 3 | 29603 | 2757 | 917 | 33277 |
| S/G/Y/R/B/O |
NT_019609 | AC084815 | 90670248 | 1 |   |   | AC009050 | 90453741 | 1 | 14434 | 3458 | 4126 | 22018 |
| S/G/Y/R/B/O |
NT_019609 | AC074301 | 90702936 | 2 | chr16 | NT_019609 | AC010531 | 90766689 | 3 | 0 | 0 | 1853 | 1853 |
| S/G/Y/R/B/O |
NT_019609 | AC074301 | 90702936 | 2 | chr16 | NT_019609 | AC009051 | 90507524 | 3 | 19881 | 2308 | 0 | 22189 |
| S/G/Y/R/B/O |
NT_019609 | AC074301 | 90702936 | 2 | chr16 | NT_019609 | AC103883 | 90481055 | 1 | 20334 | 0 | 2162 | 22496 |
| S/G/Y/R/B/O |
NT_019609 | AC074301 | 90702936 | 2 | chr16 | NT_019609 | AC106745 | 90453741 | 1 | 19881 | 2309 | 0 | 22190 |
| S/G/Y/R/B/O |
NT_019609 | AC074301 | 90702936 | 2 |   |   | AC009050 | 90481055 | 1 | 14844 | 2659 | 2850 | 20353 |
| S/G/Y/R/B/O |
NT_019609 | AC010531 | 90766689 | 3 | chr16 | NT_019609 | AC105429 | 90941743 | 3 | 101267 | 0 | 0 | 101267 |
| S/G/Y/R/B/O |
NT_019609 | AC010531 | 90766689 | 3 | chr16 | NT_019609 | AC084815 | 90670248 | 1 | 29603 | 2757 | 917 | 33277 |
| S/G/Y/R/B/O |
NT_019609 | AC010531 | 90766689 | 3 | chr16 | NT_019609 | AC103883 | 90481055 | 1 | 99241 | 11852 | 13604 | 124697 |
| S/G/Y/R/B/O |
NT_019609 | AC010531 | 90766689 | 3 |   |   | AC103885 | 90481055 | 1 | 13848 | 16910 | 13188 | 43946 |
| S/G/Y/R/B/O |
NT_019609 | AC105429 | 90941743 | 3 | chr16 | NT_019609 | AC092720 | 91001028 | 3 | 5152 | 0 | 0 | 5152 |
| S/G/Y/R/B/O |
NT_019609 | AC105429 | 90941743 | 3 | chr16 | NT_019609 | AC103883 | 90481055 | 1 | 58760 | 2955 | 1060 | 62775 |
| S/G/Y/R/B/O |
NT_019609 | AC105429 | 90941743 | 3 |   |   | AC103885 | 90481055 | 1 | 21080 | 30042 | 30012 | 81134 |
| S/G/Y/R/B/O |
NT_019609 | AC092720 | 91001028 | 3 | chr16 | NT_019609 | AC010536 | 91165087 | 3 | 73862 | 0 | 0 | 73862 |
| S/G/Y/R/B/O |
NT_019609 | AC092720 | 91001028 | 3 |   |   | AC009752 | 91375241 | 2 | 85139 | 0 | 1240 | 86379 |
| S/G/Y/R/B/O |
NT_019609 | AC092720 | 91001028 | 3 |   |   | AC093622 | 91165087 | 1 | 28989 | 6255 | 18535 | 53779 |
| S/G/Y/R/B/O |
NT_019609 | AC092720 | 91001028 | 3 |   |   | AC103889 | 91165087 | 2 | 60550 | 2080 | 0 | 62630 |
| S/G/Y/R/B/O |
NT_019609 | AC010536 | 91165087 | 3 | chr16 | NT_019609 | AC016815 | 91299138 | 2 | 68504 | 0 | 22392 | 90896 |
| S/G/Y/R/B/O |
NT_019609 | AC010536 | 91165087 | 3 |   |   | AC009752 | 90941743 | 2 | 18561 | 0 | 0 | 18561 |
| S/G/Y/R/B/O |
NT_019609 | AC010536 | 91165087 | 3 |   |   | AC093622 | 91001028 | 1 | 67082 | 5336 | 54900 | 127318 |
| S/G/Y/R/B/O |
NT_019609 | AC010536 | 91165087 | 3 |   |   | AC103889 | 91001028 | 2 | 112254 | 3640 | 2362 | 118256 |
| S/G/Y/R/B/O |
NT_019609 | AC016815 | 91299138 | 2 | chr16 | NT_019609 | AC007442 | 91300702 | 2 | 9256 | 0 | 0 | 9256 |
| S/G/Y/R/B/O |
NT_019609 | AC007442 | 91300702 | 2 | chr16 | NT_019609 | AC103887 | 91375241 | 1 | 28477 | 0 | 0 | 28477 |
| S/G/Y/R/B/O |
NT_019609 | AC103887 | 91375241 | 1 |   |   |   |   |   |   |   |   |   |
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