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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_024981 | AC090322 | 39089961 | 1 | chr18 | NT_024981 | AC012289 | 39091354 | 1 | 108243 | 2318 | 0 | 110561 |
| S/G/Y/R/B/O |
NT_024981 | AC090322 | 39089961 | 1 | chr18 | NT_024981 | AC010819 | 39260385 | 1 | 51092 | 7087 | 1293 | 59472 |
| S/G/Y/R/B/O |
NT_024981 | AC090322 | 39089961 | 1 | chr18 | NT_024981 | AC011059 | 39291113 | 3 | 38290 | 4769 | 1293 | 44352 |
| S/G/Y/R/B/O |
NT_024981 | AC090322 | 39089961 | 1 |   |   | AP001639 | 39091354 | 1 | 38283 | 4967 | 0 | 43250 |
| S/G/Y/R/B/O |
NT_024981 | AC012289 | 39091354 | 1 | chr18 | NT_024981 | AC010819 | 39260385 | 1 | 71563 | 0 | 0 | 71563 |
| S/G/Y/R/B/O |
NT_024981 | AC012289 | 39091354 | 1 |   |   | AP001639 | 39089961 | 1 | 118785 | 0 | 0 | 118785 |
| S/G/Y/R/B/O |
NT_024981 | AC010819 | 39260385 | 1 | chr18 | NT_024981 | AC011059 | 39291113 | 3 | 33588 | 0 | 38873 | 72461 |
| S/G/Y/R/B/O |
NT_024981 | AC010819 | 39260385 | 1 | chr18 | NT_024981 | AC090322 | 39089961 | 1 | 51092 | 7087 | 1293 | 59472 |
| S/G/Y/R/B/O |
NT_024981 | AC010819 | 39260385 | 1 |   |   | AP001639 | 39089961 | 1 | 110854 | 0 | 0 | 110854 |
| S/G/Y/R/B/O |
NT_024981 | AC011059 | 39291113 | 3 | chr18 | NT_024981 | AC034299 | 39401309 | 1 | 43975 | 0 | 0 | 43975 |
| S/G/Y/R/B/O |
NT_024981 | AC011059 | 39291113 | 3 | chr18 | NT_024981 | AC090322 | 39089961 | 1 | 38290 | 4769 | 1293 | 44352 |
| S/G/Y/R/B/O |
NT_024981 | AC011059 | 39291113 | 3 |   |   | AP001639 | 39089961 | 1 | 67027 | 0 | 0 | 67027 |
| S/G/Y/R/B/O |
NT_024981 | AC034299 | 39401309 | 1 | chr18 | NT_024981 | AC019032 | 39428639 | 1 | 101019 | 2957 | 2856 | 106832 |
| S/G/Y/R/B/O |
NT_024981 | AC019032 | 39428639 | 1 | chr18 | NT_024981 | AC009453 | 39542991 | 3 | 17730 | 0 | 0 | 17730 |
| S/G/Y/R/B/O |
NT_024981 | AC009453 | 39542991 | 3 | chr18 | NT_024981 | AC092706 | 39711938 | 3 | 56309 | 0 | 0 | 56309 |
| S/G/Y/R/B/O |
NT_024981 | AC009453 | 39542991 | 3 |   |   | AP001188 | 39711938 | 1 | 16748 | 0 | 0 | 16748 |
| S/G/Y/R/B/O |
NT_024981 | AC092706 | 39711938 | 3 | chr18 | NT_024981 | AC025835 | 39833582 | 2 | 73163 | 2109 | 0 | 75272 |
| S/G/Y/R/B/O |
NT_024981 | AC092706 | 39711938 | 3 |   |   | AP001188 | 39833582 | 1 | 165307 | 0 | 11616 | 176923 |
| S/G/Y/R/B/O |
NT_024981 | AC025835 | 39833582 | 2 | chr18 | NT_024981 | AC079052 | 39865701 | 2 | 49673 | 0 | 0 | 49673 |
| S/G/Y/R/B/O |
NT_024981 | AC025835 | 39833582 | 2 |   |   | AP001188 | 39711938 | 1 | 64607 | 0 | 0 | 64607 |
| S/G/Y/R/B/O |
NT_024981 | AC079052 | 39865701 | 2 | chr18 | NT_024981 | AC021504 | 40029921 | 2 | 58059 | 0 | 0 | 58059 |
| S/G/Y/R/B/O |
NT_024981 | AC079052 | 39865701 | 2 |   |   | AC016066 | 39711938 | 1 | 72760 | 1541 | 0 | 74301 |
| S/G/Y/R/B/O |
NT_024981 | AC079052 | 39865701 | 2 |   |   | AP001370 | 83783744 | 1 | 71475 | 0 | 0 | 71475 |
| S/G/Y/R/B/O |
NT_024981 | AC021504 | 40029921 | 2 | chr18 | NT_024981 | AC011712 | 40148930 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_024981 | AC021504 | 40029921 | 2 |   |   | AC016066 | 40148930 | 1 | 93889 | 0 | 0 | 93889 |
| S/G/Y/R/B/O |
NT_024981 | AC021504 | 40029921 | 2 |   |   | AP001370 | 83783744 | 1 | 106170 | 0 | 0 | 106170 |
| S/G/Y/R/B/O |
NT_024981 | AC011712 | 40148930 | 3 | chr18 | NT_024981 | AC011225 | 40292094 | 2 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_024981 | AC011225 | 40292094 | 2 | chr18 | NT_024981 | AC087683 | 40438928 | 3 | 5361 | 0 | 0 | 5361 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 | chr18 | NT_024981 | AC090239 | 40614600 | 3 | 85096 | 0 | 0 | 85096 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 | chr18 | NT_024981 | AP001382 | 41057317 | 1 | 95077 | 2763 | 0 | 97840 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 | chr18 | NT_024981 | AP002503 | 41055883 | 1 | 62584 | 1453 | 490 | 64527 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 |   |   | AC090320 | 40614600 | 1 | 65986 | 1600 | 37282 | 104868 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 |   |   | AP001174 | 40614600 | 1 | 36296 | 4395 | 533 | 41224 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 |   |   | AP001796 | 41057317 | 1 | 104210 | 0 | 1395 | 105605 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 |   |   | AP001798 | 41057317 | 1 | 83146 | 1565 | 1111 | 85822 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 |   |   | AP002390 | 41057317 | 1 | 139955 | 1966 | 20034 | 161955 |
| S/G/Y/R/B/O |
NT_024981 | AC087683 | 40438928 | 3 |   |   | AP002894 | 41055883 | 1 | 156075 | 0 | 6183 | 162258 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 | chr18 | NT_024981 | AC021735 | 40701775 | 3 | 12242 | 0 | 0 | 12242 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 | chr18 | NT_024981 | AP001382 | 41057317 | 1 | 107694 | 0 | 11813 | 119507 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 | chr18 | NT_024981 | AP002503 | 41055883 | 1 | 148316 | 5409 | 1127 | 154852 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 |   |   | AC090320 | 40438928 | 1 | 77947 | 0 | 37191 | 115138 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 |   |   | AP001174 | 40438928 | 1 | 140067 | 11565 | 1805 | 153437 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 |   |   | AP001796 | 41057317 | 1 | 105213 | 0 | 10250 | 115463 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 |   |   | AP001798 | 41057317 | 1 | 93727 | 1564 | 0 | 95291 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 |   |   | AP002390 | 41057317 | 1 | 62954 | 2484 | 18951 | 84389 |
| S/G/Y/R/B/O |
NT_024981 | AC090239 | 40614600 | 3 |   |   | AP002894 | 41055883 | 1 | 82513 | 1750 | 0 | 84263 |
| S/G/Y/R/B/O |
NT_024981 | AC021735 | 40701775 | 3 | chr18 | NT_024981 | AC015670 | 40872285 | 2 | 30947 | 0 | 0 | 30947 |
| S/G/Y/R/B/O |
NT_024981 | AC015670 | 40872285 | 2 | chr18 | NT_024981 | AC011165 | 40991426 | 2 | 98104 | 0 | 0 | 98104 |
| S/G/Y/R/B/O |
NT_024981 | AC011165 | 40991426 | 2 | chr18 | NT_024981 | AC084335 | 41039860 | 2 | 32831 | 0 | 0 | 32831 |
| S/G/Y/R/B/O |
NT_024981 | AC084335 | 41039860 | 2 | chr18 | NT_024981 | AP002503 | 41055883 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_024981 | AC084335 | 41039860 | 2 |   |   | AC011014 | 41039860 | 2 | 67575 | 0 | 0 | 67575 |
| S/G/Y/R/B/O |
NT_024981 | AC084335 | 41039860 | 2 |   |   | AC022659 | 40991426 | 1 | 25649 | 0 | 0 | 25649 |
| S/G/Y/R/B/O |
NT_024981 | AC084335 | 41039860 | 2 |   |   | AP001643 | 40991426 | 1 | 16059 | 2512 | 3661 | 22232 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 | chr18 | NT_024981 | AP001382 | 41057317 | 1 | 48601 | 2846 | 8919 | 60366 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 | chr18 | NT_024981 | AC087683 | 40438928 | 3 | 62584 | 1453 | 490 | 64527 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 | chr18 | NT_024981 | AC090239 | 40614600 | 3 | 148316 | 5409 | 1127 | 154852 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 |   |   | AC090320 | 40614600 | 1 | 66262 | 3527 | 765 | 70554 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 |   |   | AP001174 | 40614600 | 1 | 78277 | 9752 | 533 | 88562 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 |   |   | AP001796 | 41057317 | 1 | 89045 | 2082 | 765 | 91892 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 |   |   | AP001798 | 41057317 | 1 | 68584 | 1564 | 0 | 70148 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 |   |   | AP002390 | 41057317 | 1 | 19393 | 1442 | 11666 | 32501 |
| S/G/Y/R/B/O |
NT_024981 | AP002503 | 41055883 | 1 |   |   | AP002894 | 41057317 | 1 | 30780 | 1749 | 0 | 32529 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 | chr18 | NT_024981 | AC025480 | 41155451 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 | chr18 | NT_024981 | AC087683 | 40438928 | 3 | 95077 | 2763 | 0 | 97840 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 | chr18 | NT_024981 | AC090239 | 40614600 | 3 | 107694 | 0 | 11813 | 119507 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 |   |   | AC090320 | 40614600 | 1 | 84630 | 2673 | 0 | 87303 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 |   |   | AP001174 | 40614600 | 1 | 65597 | 5810 | 533 | 71940 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 |   |   | AP001796 | 40614600 | 1 | 109967 | 2756 | 11814 | 124537 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 |   |   | AP001798 | 40614600 | 1 | 47820 | 1565 | 8156 | 57541 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 |   |   | AP002390 | 40614600 | 1 | 73755 | 2760 | 18763 | 95278 |
| S/G/Y/R/B/O |
NT_024981 | AP001382 | 41057317 | 1 |   |   | AP002894 | 41055883 | 1 | 63530 | 0 | 5244 | 68774 |
| S/G/Y/R/B/O |
NT_024981 | AC025480 | 41155451 | 2 | chr18 | NT_024981 | AC091169 | 41325045 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_024981 | AC025480 | 41155451 | 2 |   |   | AC011014 | 41055883 | 2 | 120364 | 0 | 0 | 120364 |
| S/G/Y/R/B/O |
NT_024981 | AC025480 | 41155451 | 2 |   |   | AC022659 | 56481772 | 1 | 143896 | 0 | 0 | 143896 |
| S/G/Y/R/B/O |
NT_024981 | AC025480 | 41155451 | 2 |   |   | AP001643 | 56481772 | 1 | 99831 | 1933 | 19126 | 120890 |
| S/G/Y/R/B/O |
NT_024981 | AC025480 | 41155451 | 2 |   |   | AP001843 | 56481772 | 1 | 88328 | 3434 | 939 | 92701 |
| S/G/Y/R/B/O |
NT_024981 | AC091169 | 41325045 | 3 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_024981 | AC091169 | 41325045 | 3 |   |   | AC090237 | 56481772 | 1 | 134796 | 0 | 0 | 134796 |
| S/G/Y/R/B/O |
NT_024981 | AC091169 | 41325045 | 3 |   |   | AP001843 | 56481772 | 1 | 68253 | 1722 | 2407 | 72382 |
| S/G/Y/R/B/O |
NT_024981 | AC091169 | 41325045 | 3 |   |   | AP001914 | 56481772 | 1 | 115087 | 4614 | 10126 | 129827 |
| S/G/Y/R/B/O |
NT_024981 | AC091169 | 41325045 | 3 |   |   | AP002413 | 56481772 | 1 | 160845 | 0 | 0 | 160845 |
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