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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_011005 | AC031976 | 1 | 1 | chr18 | NT_011005 | AC008109 | 4721 | 3 | 48868 | 0 | 0 | 48868 |
| S/G/Y/R/B/O |
NT_011005 | AC031976 | 1 | 1 | chr18 | NT_011005 | AC011983 | 1240978 | 1 | 69914 | 0 | 6632 | 76546 |
| S/G/Y/R/B/O |
NT_011005 | AC031976 | 1 | 1 | chr18 | NT_011005 | AP000829 | 839147 | 1 | 24737 | 0 | 23213 | 47950 |
| S/G/Y/R/B/O |
NT_011005 | AC031976 | 1 | 1 |   |   | AP001196 | 839147 | 1 | 96948 | 9496 | 3878 | 110322 |
| S/G/Y/R/B/O |
NT_011005 | AC008109 | 4721 | 3 | chr18 | NT_011005 | AC019183 | 171540 | 3 | 54862 | 0 | 0 | 54862 |
| S/G/Y/R/B/O |
NT_011005 | AC008109 | 4721 | 3 |   |   | AP001196 | 1 | 1 | 62968 | 6817 | 4094 | 73879 |
| S/G/Y/R/B/O |
NT_011005 | AC019183 | 171540 | 3 | chr18 | NT_011005 | AC079971 | 299760 | 2 | 4276 | 0 | 0 | 4276 |
| S/G/Y/R/B/O |
NT_011005 | AC079971 | 299760 | 2 | chr18 | NT_011005 | AC013341 | 361995 | 1 | 87340 | 0 | 0 | 87340 |
| S/G/Y/R/B/O |
NT_011005 | AC013341 | 361995 | 1 | chr18 | NT_011005 | AP000915 | 410698 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AC013341 | 361995 | 1 | chr18 | NT_011005 | AC037474 | 1932867 | 1 | 33183 | 958 | 3954 | 38095 |
| S/G/Y/R/B/O |
NT_011005 | AP000915 | 410698 | 1 | chr18 | NT_011005 | AC022545 | 457884 | 1 | 49667 | 6005 | 2850 | 58522 |
| S/G/Y/R/B/O |
NT_011005 | AP000915 | 410698 | 1 | chr18 | NT_011005 | AC016128 | 1060056 | 1 | 44975 | 0 | 0 | 44975 |
| S/G/Y/R/B/O |
NT_011005 | AP000915 | 410698 | 1 | chr18 | NT_011005 | AP000900 | 1083301 | 1 | 30994 | 2962 | 11159 | 45115 |
| S/G/Y/R/B/O |
NT_011005 | AP000915 | 410698 | 1 | chr18 | NT_011005 | AP001022 | 1130960 | 1 | 51051 | 3872 | 1187 | 56110 |
| S/G/Y/R/B/O |
NT_011005 | AP000915 | 410698 | 1 |   |   | AP000939 | 1083301 | 1 | 40116 | 3354 | 0 | 43470 |
| S/G/Y/R/B/O |
NT_011005 | AC022545 | 457884 | 1 | chr18 | NT_011005 | AP001178 | 559241 | 1 | 27855 | 0 | 9517 | 37372 |
| S/G/Y/R/B/O |
NT_011005 | AC022545 | 457884 | 1 | chr18 | NT_011005 | AC020697 | 579984 | 1 | 31590 | 0 | 3469 | 35059 |
| S/G/Y/R/B/O |
NT_011005 | AP001178 | 559241 | 1 | chr18 | NT_011005 | AC020697 | 579984 | 1 | 97294 | 2398 | 23491 | 123183 |
| S/G/Y/R/B/O |
NT_011005 | AP001178 | 559241 | 1 | chr18 | NT_011005 | AC021474 | 661988 | 1 | 33886 | 4454 | 0 | 38340 |
| S/G/Y/R/B/O |
NT_011005 | AP001178 | 559241 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 23929 | 4692 | 12896 | 41517 |
| S/G/Y/R/B/O |
NT_011005 | AP001178 | 559241 | 1 | chr18 | NT_011005 | AP001097 | 674229 | 1 | 30076 | 15696 | 3844 | 49616 |
| S/G/Y/R/B/O |
NT_011005 | AP001178 | 559241 | 1 |   |   | AF305057 | 457884 | 3 | 14070 | 2055 | 5067 | 21192 |
| S/G/Y/R/B/O |
NT_011005 | AC020697 | 579984 | 1 | chr18 | NT_011005 | AC021474 | 661988 | 1 | 57819 | 0 | 0 | 57819 |
| S/G/Y/R/B/O |
NT_011005 | AC020697 | 579984 | 1 | chr18 | NT_011005 | AC022545 | 457884 | 1 | 31590 | 0 | 3469 | 35059 |
| S/G/Y/R/B/O |
NT_011005 | AC020697 | 579984 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 31462 | 0 | 236 | 31698 |
| S/G/Y/R/B/O |
NT_011005 | AC020697 | 579984 | 1 | chr18 | NT_011005 | AP001097 | 674229 | 1 | 23007 | 14517 | 2437 | 39961 |
| S/G/Y/R/B/O |
NT_011005 | AC020697 | 579984 | 1 |   |   | AF305057 | 457884 | 3 | 14641 | 0 | 0 | 14641 |
| S/G/Y/R/B/O |
NT_011005 | AC021474 | 661988 | 1 | chr18 | NT_011005 | AP001097 | 674229 | 1 | 38622 | 19949 | 3722 | 62293 |
| S/G/Y/R/B/O |
NT_011005 | AC021474 | 661988 | 1 | chr18 | NT_011005 | AP000931 | 1733490 | 1 | 26743 | 4457 | 2943 | 34143 |
| S/G/Y/R/B/O |
NT_011005 | AC021474 | 661988 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 52798 | 5854 | 16993 | 75645 |
| S/G/Y/R/B/O |
NT_011005 | AC021474 | 661988 | 1 | chr18 | NT_011005 | AP001178 | 559241 | 1 | 33886 | 4454 | 0 | 38340 |
| S/G/Y/R/B/O |
NT_011005 | AC021474 | 661988 | 1 |   |   | AF305057 | 579984 | 3 | 33593 | 0 | 1621 | 35214 |
| S/G/Y/R/B/O |
NT_011005 | AP001097 | 674229 | 1 | chr18 | NT_011005 | AC069572 | 677912 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP001097 | 674229 | 1 | chr18 | NT_011005 | AC020697 | 579984 | 1 | 23007 | 14517 | 2437 | 39961 |
| S/G/Y/R/B/O |
NT_011005 | AP001097 | 674229 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 47866 | 23672 | 3433 | 74971 |
| S/G/Y/R/B/O |
NT_011005 | AP001097 | 674229 | 1 | chr18 | NT_011005 | AP001178 | 559241 | 1 | 30076 | 15696 | 3844 | 49616 |
| S/G/Y/R/B/O |
NT_011005 | AP001097 | 674229 | 1 |   |   | AF305057 | 661988 | 3 | 17743 | 3793 | 2041 | 23577 |
| S/G/Y/R/B/O |
NT_011005 | AC069572 | 677912 | 1 | chr18 | NT_011005 | AC046172 | 680496 | 1 | 55567 | 9120 | 13269 | 77956 |
| S/G/Y/R/B/O |
NT_011005 | AC069572 | 677912 | 1 | chr18 | NT_011005 | AP000894 | 904018 | 1 | 31846 | 7786 | 5170 | 44802 |
| S/G/Y/R/B/O |
NT_011005 | AC069572 | 677912 | 1 | chr18 | NT_011005 | AP000938 | 943830 | 1 | 19352 | 1557 | 6296 | 27205 |
| S/G/Y/R/B/O |
NT_011005 | AC069572 | 677912 | 1 |   |   | X60435 | 99214082 | 3 | 11916 | 0 | 0 | 11916 |
| S/G/Y/R/B/O |
NT_011005 | AC046172 | 680496 | 1 | chr18 | NT_011005 | AC025112 | 728230 | 1 | 18871 | 7741 | 1672 | 28284 |
| S/G/Y/R/B/O |
NT_011005 | AC046172 | 680496 | 1 | chr18 | NT_011005 | AC027433 | 766388 | 1 | 13850 | 10078 | 0 | 23928 |
| S/G/Y/R/B/O |
NT_011005 | AC025112 | 728230 | 1 | chr18 | NT_011005 | AC027433 | 766388 | 1 | 77964 | 29593 | 0 | 107557 |
| S/G/Y/R/B/O |
NT_011005 | AC025112 | 728230 | 1 | chr18 | NT_011005 | AP000829 | 839147 | 1 | 40408 | 9090 | 5776 | 55274 |
| S/G/Y/R/B/O |
NT_011005 | AC027433 | 766388 | 1 | chr18 | NT_011005 | AP000829 | 839147 | 1 | 45421 | 12998 | 4153 | 62572 |
| S/G/Y/R/B/O |
NT_011005 | AC027433 | 766388 | 1 | chr18 | NT_011005 | AC046172 | 680496 | 1 | 13850 | 10078 | 0 | 23928 |
| S/G/Y/R/B/O |
NT_011005 | AP000829 | 839147 | 1 | chr18 | NT_011005 | AP000894 | 904018 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP000829 | 839147 | 1 | chr18 | NT_011005 | AC011983 | 1240978 | 1 | 46068 | 1812 | 26153 | 74033 |
| S/G/Y/R/B/O |
NT_011005 | AP000829 | 839147 | 1 | chr18 | NT_011005 | AC025112 | 728230 | 1 | 40408 | 9090 | 5776 | 55274 |
| S/G/Y/R/B/O |
NT_011005 | AP000829 | 839147 | 1 | chr18 | NT_011005 | AC031976 | 1 | 1 | 24737 | 0 | 23213 | 47950 |
| S/G/Y/R/B/O |
NT_011005 | AP000894 | 904018 | 1 | chr18 | NT_011005 | AP000938 | 943830 | 1 | 90603 | 11845 | 8227 | 110675 |
| S/G/Y/R/B/O |
NT_011005 | AP000894 | 904018 | 1 | chr18 | NT_011005 | AC069572 | 677912 | 1 | 31846 | 7786 | 5170 | 44802 |
| S/G/Y/R/B/O |
NT_011005 | AP000894 | 904018 | 1 | chr18 | NT_011005 | AP000931 | 1733490 | 1 | 22951 | 10885 | 31579 | 65415 |
| S/G/Y/R/B/O |
NT_011005 | AP000938 | 943830 | 1 | chr18 | NT_011005 | AC016128 | 1060056 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP000938 | 943830 | 1 | chr18 | NT_011005 | AC069572 | 677912 | 1 | 19352 | 1557 | 6296 | 27205 |
| S/G/Y/R/B/O |
NT_011005 | AP000938 | 943830 | 1 | chr18 | NT_011005 | AP000931 | 1733490 | 1 | 21193 | 8672 | 3973 | 33838 |
| S/G/Y/R/B/O |
NT_011005 | AP000938 | 943830 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 10305 | 0 | 4849 | 15154 |
| S/G/Y/R/B/O |
NT_011005 | AC016128 | 1060056 | 1 | chr18 | NT_011005 | AP000900 | 1083301 | 1 | 93729 | 10237 | 9240 | 113206 |
| S/G/Y/R/B/O |
NT_011005 | AC016128 | 1060056 | 1 | chr18 | NT_011005 | AP000845 | 1084244 | 1 | 103645 | 0 | 3907 | 107552 |
| S/G/Y/R/B/O |
NT_011005 | AC016128 | 1060056 | 1 | chr18 | NT_011005 | AP000915 | 410698 | 1 | 44975 | 0 | 0 | 44975 |
| S/G/Y/R/B/O |
NT_011005 | AC016128 | 1060056 | 1 | chr18 | NT_011005 | AP001022 | 1130960 | 1 | 62603 | 13037 | 17127 | 92767 |
| S/G/Y/R/B/O |
NT_011005 | AC016128 | 1060056 | 1 |   |   | AP000939 | 410698 | 1 | 108719 | 6897 | 6568 | 122184 |
| S/G/Y/R/B/O |
NT_011005 | AP000900 | 1083301 | 1 | chr18 | NT_011005 | AP000845 | 1084244 | 1 | 84918 | 6468 | 20859 | 112245 |
| S/G/Y/R/B/O |
NT_011005 | AP000900 | 1083301 | 1 | chr18 | NT_011005 | AP000915 | 410698 | 1 | 30994 | 2962 | 11159 | 45115 |
| S/G/Y/R/B/O |
NT_011005 | AP000900 | 1083301 | 1 | chr18 | NT_011005 | AP001022 | 1130960 | 1 | 19834 | 12680 | 14235 | 46749 |
| S/G/Y/R/B/O |
NT_011005 | AP000900 | 1083301 | 1 |   |   | AP000939 | 410698 | 1 | 77222 | 0 | 23426 | 100648 |
| S/G/Y/R/B/O |
NT_011005 | AP000845 | 1084244 | 1 | chr18 | NT_011005 | AP001022 | 1130960 | 1 | 53147 | 17946 | 18450 | 89543 |
| S/G/Y/R/B/O |
NT_011005 | AP000845 | 1084244 | 1 | chr18 | NT_011005 | AC016128 | 1060056 | 1 | 103645 | 0 | 3907 | 107552 |
| S/G/Y/R/B/O |
NT_011005 | AP000845 | 1084244 | 1 | chr18 | NT_011005 | AP001005 | 1605556 | 1 | 24707 | 0 | 1880 | 26587 |
| S/G/Y/R/B/O |
NT_011005 | AP000845 | 1084244 | 1 |   |   | AP000939 | 410698 | 1 | 81074 | 4455 | 3016 | 88545 |
| S/G/Y/R/B/O |
NT_011005 | AP001022 | 1130960 | 1 | chr18 | NT_011005 | AC011983 | 1240978 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP001022 | 1130960 | 1 | chr18 | NT_011005 | AC016128 | 1060056 | 1 | 62603 | 13037 | 17127 | 92767 |
| S/G/Y/R/B/O |
NT_011005 | AP001022 | 1130960 | 1 | chr18 | NT_011005 | AP000900 | 1083301 | 1 | 19834 | 12680 | 14235 | 46749 |
| S/G/Y/R/B/O |
NT_011005 | AP001022 | 1130960 | 1 | chr18 | NT_011005 | AP000915 | 410698 | 1 | 51051 | 3872 | 1187 | 56110 |
| S/G/Y/R/B/O |
NT_011005 | AP001022 | 1130960 | 1 |   |   | AP000939 | 410698 | 1 | 31339 | 4684 | 1242 | 37265 |
| S/G/Y/R/B/O |
NT_011005 | AC011983 | 1240978 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AC011983 | 1240978 | 1 | chr18 | NT_011005 | AC031976 | 1 | 1 | 69914 | 0 | 6632 | 76546 |
| S/G/Y/R/B/O |
NT_011005 | AC011983 | 1240978 | 1 | chr18 | NT_011005 | AP000829 | 839147 | 1 | 46068 | 1812 | 26153 | 74033 |
| S/G/Y/R/B/O |
NT_011005 | AC011983 | 1240978 | 1 |   |   | AP001196 | 839147 | 1 | 32557 | 3296 | 6969 | 42822 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AP001005 | 1605556 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AC020697 | 579984 | 1 | 31462 | 0 | 236 | 31698 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AC021474 | 661988 | 1 | 52798 | 5854 | 16993 | 75645 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AP000931 | 1733490 | 1 | 35182 | 11250 | 1338 | 47770 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AP000938 | 943830 | 1 | 10305 | 0 | 4849 | 15154 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AP001097 | 674229 | 1 | 47866 | 23672 | 3433 | 74971 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 | chr18 | NT_011005 | AP001178 | 559241 | 1 | 23929 | 4692 | 12896 | 41517 |
| S/G/Y/R/B/O |
NT_011005 | AP001020 | 1405691 | 1 |   |   | AF305057 | 661988 | 3 | 36733 | 1122 | 2721 | 40576 |
| S/G/Y/R/B/O |
NT_011005 | AP001005 | 1605556 | 1 | chr18 | NT_011005 | AP000931 | 1733490 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP001005 | 1605556 | 1 | chr10 | NT_024115 | AL713922 | 1 | 1 | 32375 | 0 | 0 | 32375 |
| S/G/Y/R/B/O |
NT_011005 | AP001005 | 1605556 | 1 | chr18 | NT_011005 | AP000845 | 1084244 | 1 | 24707 | 0 | 1880 | 26587 |
| S/G/Y/R/B/O |
NT_011005 | AP000931 | 1733490 | 1 | chr18 | NT_011005 | AC037474 | 1932867 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_011005 | AP000931 | 1733490 | 1 | chr18 | NT_011005 | AC021474 | 661988 | 1 | 26743 | 4457 | 2943 | 34143 |
| S/G/Y/R/B/O |
NT_011005 | AP000931 | 1733490 | 1 | chr18 | NT_011005 | AP000894 | 904018 | 1 | 22951 | 10885 | 31579 | 65415 |
| S/G/Y/R/B/O |
NT_011005 | AP000931 | 1733490 | 1 | chr18 | NT_011005 | AP000938 | 943830 | 1 | 21193 | 8672 | 3973 | 33838 |
| S/G/Y/R/B/O |
NT_011005 | AP000931 | 1733490 | 1 | chr18 | NT_011005 | AP001020 | 1405691 | 1 | 35182 | 11250 | 1338 | 47770 |
| S/G/Y/R/B/O |
NT_011005 | AC037474 | 1932867 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_011005 | AC037474 | 1932867 | 1 | chr18 | NT_011005 | AC013341 | 361995 | 1 | 33183 | 958 | 3954 | 38095 |
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