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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_022194 | AC105253 | 3541835 | 1 | chr2 | NT_022194 | AC104794 | 3542765 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC105253 | 3541835 | 1 | chr2 | NT_022194 | AC017053 | 3923332 | 3 | 31810 | 0 | 0 | 31810 |
| S/G/Y/R/B/O |
NT_022194 | AC105253 | 3541835 | 1 | chr2 | NT_022194 | AC021021 | 3635813 | 3 | 105778 | 0 | 0 | 105778 |
| S/G/Y/R/B/O |
NT_022194 | AC104794 | 3542765 | 1 | chr2 | NT_022194 | AC021021 | 3635813 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC104794 | 3542765 | 1 | chr2 | NT_022194 | AC010969 | 8394388 | 3 | 51239 | 0 | 0 | 51239 |
| S/G/Y/R/B/O |
NT_022194 | AC104794 | 3542765 | 1 | chr2 | NT_022194 | AC027264 | 8606877 | 1 | 10429 | 2088 | 0 | 12517 |
| S/G/Y/R/B/O |
NT_022194 | AC104794 | 3542765 | 1 |   |   | AY032750 | 98844067 | 3 | 10244 | 0 | 0 | 10244 |
| S/G/Y/R/B/O |
NT_022194 | AC021021 | 3635813 | 3 | chr2 | NT_022194 | AC097517 | 3805015 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC021021 | 3635813 | 3 | chr2 | NT_022194 | AC105253 | 3541835 | 1 | 105778 | 0 | 0 | 105778 |
| S/G/Y/R/B/O |
NT_022194 | AC097517 | 3805015 | 3 | chr2 | NT_022194 | AC027453 | 3895242 | 1 | 19281 | 0 | 879 | 20160 |
| S/G/Y/R/B/O |
NT_022194 | AC027453 | 3895242 | 1 | chr2 | NT_022194 | AC017053 | 3923332 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC027453 | 3895242 | 1 | chr2 | NT_022194 | AC017076 | 5365432 | 3 | 23154 | 2953 | 0 | 26107 |
| S/G/Y/R/B/O |
NT_022194 | AC027453 | 3895242 | 1 | chr2 | NT_022194 | AC079923 | 5243777 | 3 | 111654 | 0 | 6689 | 118343 |
| S/G/Y/R/B/O |
NT_022194 | AC017053 | 3923332 | 3 | chr2 | NT_022194 | AC097660 | 4103284 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC017053 | 3923332 | 3 | chr2 | NT_022194 | AC105253 | 3541835 | 1 | 31810 | 0 | 0 | 31810 |
| S/G/Y/R/B/O |
NT_022194 | AC097660 | 4103284 | 3 | chr2 | NT_022194 | AC073479 | 4105278 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC073479 | 4105278 | 3 | chr2 | NT_022194 | AC079770 | 4299949 | 3 | 0 | 1997 | 0 | 1997 |
| S/G/Y/R/B/O |
NT_022194 | AC073479 | 4105278 | 3 |   |   | AC021179 | 4105278 | 1 | 130336 | 1997 | 28365 | 160698 |
| S/G/Y/R/B/O |
NT_022194 | AC079770 | 4299949 | 3 | chr2 | NT_022194 | AC010729 | 4379293 | 3 | 0 | 1998 | 0 | 1998 |
| S/G/Y/R/B/O |
NT_022194 | AC079770 | 4299949 | 3 |   |   | AC021179 | 4379293 | 1 | 12608 | 0 | 3451 | 16059 |
| S/G/Y/R/B/O |
NT_022194 | AC010729 | 4379293 | 3 | chr2 | NT_022194 | AC108025 | 4571227 | 1 | 56952 | 0 | 0 | 56952 |
| S/G/Y/R/B/O |
NT_022194 | AC010729 | 4379293 | 3 |   |   | AC084232 | 4299949 | 1 | 88571 | 7575 | 4312 | 100458 |
| S/G/Y/R/B/O |
NT_022194 | AC108025 | 4571227 | 1 | chr2 | NT_022194 | AC012292 | 4665073 | 1 | 13338 | 0 | 0 | 13338 |
| S/G/Y/R/B/O |
NT_022194 | AC108025 | 4571227 | 1 | chr2 | NT_022194 | AC107057 | 4676498 | 1 | 19034 | 12101 | 6752 | 37887 |
| S/G/Y/R/B/O |
NT_022194 | AC108025 | 4571227 | 1 |   |   | AC012438 | 4665073 | 1 | 12865 | 0 | 0 | 12865 |
| S/G/Y/R/B/O |
NT_022194 | AC108025 | 4571227 | 1 |   |   | AC084232 | 140426836 | 1 | 89676 | 10767 | 10900 | 111343 |
| S/G/Y/R/B/O |
NT_022194 | AC012292 | 4665073 | 1 | chr2 | NT_022194 | AC107057 | 4676498 | 1 | 80863 | 0 | 9176 | 90039 |
| S/G/Y/R/B/O |
NT_022194 | AC012292 | 4665073 | 1 | chr2 | NT_022194 | AC012595 | 4748629 | 3 | 34746 | 0 | 9279 | 44025 |
| S/G/Y/R/B/O |
NT_022194 | AC012292 | 4665073 | 1 |   |   | AC012438 | 4676498 | 1 | 112095 | 4038 | 3553 | 119686 |
| S/G/Y/R/B/O |
NT_022194 | AC107057 | 4676498 | 1 | chr2 | NT_022194 | AC012595 | 4748629 | 3 | 36943 | 2427 | 18038 | 57408 |
| S/G/Y/R/B/O |
NT_022194 | AC107057 | 4676498 | 1 | chr2 | NT_022194 | AC108025 | 4571227 | 1 | 19034 | 12101 | 6752 | 37887 |
| S/G/Y/R/B/O |
NT_022194 | AC107057 | 4676498 | 1 |   |   | AC012438 | 4665073 | 1 | 90608 | 4038 | 3553 | 98199 |
| S/G/Y/R/B/O |
NT_022194 | AC012595 | 4748629 | 3 | chr2 | NT_022194 | AC073143 | 4919115 | 3 | 0 | 0 | 200 | 200 |
| S/G/Y/R/B/O |
NT_022194 | AC012595 | 4748629 | 3 | chr2 | NT_022194 | AC012292 | 4665073 | 1 | 34746 | 0 | 9279 | 44025 |
| S/G/Y/R/B/O |
NT_022194 | AC012595 | 4748629 | 3 |   |   | AC012438 | 4665073 | 1 | 31815 | 0 | 1295 | 33110 |
| S/G/Y/R/B/O |
NT_022194 | AC073143 | 4919115 | 3 | chr2 | NT_022194 | AC107485 | 4973610 | 3 | 0 | 1998 | 0 | 1998 |
| S/G/Y/R/B/O |
NT_022194 | AC107485 | 4973610 | 3 | chr2 | NT_022194 | AC019115 | 4993112 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC019115 | 4993112 | 3 | chr2 | NT_022194 | AC104839 | 5205108 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_022194 | AC104839 | 5205108 | 3 | chr2 | NT_022194 | AC079923 | 5243777 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC079923 | 5243777 | 3 | chr2 | NT_022194 | AC017076 | 5365432 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC079923 | 5243777 | 3 | chr2 | NT_022194 | AC027453 | 3895242 | 1 | 111654 | 0 | 6689 | 118343 |
| S/G/Y/R/B/O |
NT_022194 | AC017076 | 5365432 | 3 | chr2 | NT_022194 | AC068481 | 5482240 | 3 | 0 | 0 | 200 | 200 |
| S/G/Y/R/B/O |
NT_022194 | AC017076 | 5365432 | 3 | chr2 | NT_022194 | AC027453 | 3895242 | 1 | 23154 | 2953 | 0 | 26107 |
| S/G/Y/R/B/O |
NT_022194 | AC068481 | 5482240 | 3 | chr2 | NT_022194 | AC019048 | 5637521 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC019048 | 5637521 | 3 | chr2 | NT_022194 | AC073312 | 5755002 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC019048 | 5637521 | 3 |   |   | AC113379 | 5482240 | 1 | 45679 | 0 | 0 | 45679 |
| S/G/Y/R/B/O |
NT_022194 | AC073312 | 5755002 | 3 | chr2 | NT_022194 | AC010904 | 5820791 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC073312 | 5755002 | 3 |   |   | AC113379 | 5482240 | 1 | 67735 | 0 | 0 | 67735 |
| S/G/Y/R/B/O |
NT_022194 | AC010904 | 5820791 | 3 | chr2 | NT_022194 | AC013460 | 5925427 | 3 | 0 | 0 | 200 | 200 |
| S/G/Y/R/B/O |
NT_022194 | AC010904 | 5820791 | 3 |   |   | AC113379 | 5925427 | 1 | 52144 | 0 | 0 | 52144 |
| S/G/Y/R/B/O |
NT_022194 | AC013460 | 5925427 | 3 | chr2 | NT_022194 | AC068600 | 6082185 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC013460 | 5925427 | 3 |   |   | AC024640 | 5820791 | 1 | 77298 | 2570 | 13238 | 93106 |
| S/G/Y/R/B/O |
NT_022194 | AC068600 | 6082185 | 3 | chr2 | NT_022194 | AC092580 | 6216842 | 3 | 0 | 1995 | 0 | 1995 |
| S/G/Y/R/B/O |
NT_022194 | AC068600 | 6082185 | 3 |   |   | AC024640 | 63323676 | 1 | 79002 | 7650 | 1323 | 87975 |
| S/G/Y/R/B/O |
NT_022194 | AC092580 | 6216842 | 3 | chr2 | NT_022194 | AC072053 | 6335334 | 3 | 0 | 1996 | 0 | 1996 |
| S/G/Y/R/B/O |
NT_022194 | AC072053 | 6335334 | 3 | chr2 | NT_022194 | AC007463 | 6372559 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_022194 | AC007463 | 6372559 | 3 | chr2 | NT_022194 | AC007464 | 6537451 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC007463 | 6372559 | 3 |   |   | AC009020 | 6216842 | 1 | 26858 | 0 | 0 | 26858 |
| S/G/Y/R/B/O |
NT_022194 | AC007464 | 6537451 | 3 | chr2 | NT_022194 | U91324 | 6723438 | 3 | 61105 | 0 | 0 | 61105 |
| S/G/Y/R/B/O |
NT_022194 | AC007464 | 6537451 | 3 |   |   | AC009020 | 6335334 | 1 | 133812 | 1869 | 0 | 135681 |
| S/G/Y/R/B/O |
NT_022194 | U91324 | 6723438 | 3 | chr2 | NT_022194 | AC092177 | 6837139 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | U91324 | 6723438 | 3 |   |   | AC010502 | 6537451 | 1 | 32679 | 0 | 0 | 32679 |
| S/G/Y/R/B/O |
NT_022194 | AC092177 | 6837139 | 3 | chr2 | NT_022194 | AC104815 | 6935271 | 1 | 83439 | 0 | 0 | 83439 |
| S/G/Y/R/B/O |
NT_022194 | AC092177 | 6837139 | 3 |   |   | AC010502 | 6537451 | 1 | 87756 | 0 | 3904 | 91660 |
| S/G/Y/R/B/O |
NT_022194 | AC092177 | 6837139 | 3 |   |   | AC023779 | 6537451 | 1 | 83911 | 0 | 0 | 83911 |
| S/G/Y/R/B/O |
NT_022194 | AC104815 | 6935271 | 1 | chr2 | NT_022194 | AC092617 | 6973158 | 3 | 39275 | 0 | 0 | 39275 |
| S/G/Y/R/B/O |
NT_022194 | AC104815 | 6935271 | 1 |   |   | AC010502 | 6935271 | 1 | 63106 | 0 | 3906 | 67012 |
| S/G/Y/R/B/O |
NT_022194 | AC104815 | 6935271 | 1 |   |   | AC023779 | 6935271 | 1 | 144315 | 0 | 0 | 144315 |
| S/G/Y/R/B/O |
NT_022194 | AC092617 | 6973158 | 3 | chr2 | NT_022194 | AC011747 | 7113254 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC092617 | 6973158 | 3 |   |   | AC023779 | 6973158 | 1 | 29998 | 0 | 0 | 29998 |
| S/G/Y/R/B/O |
NT_022194 | AC011747 | 7113254 | 3 | chr2 | NT_022194 | AC012495 | 7288687 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC011747 | 7113254 | 3 |   |   | AC010758 | 6935271 | 1 | 137786 | 0 | 14339 | 152125 |
| S/G/Y/R/B/O |
NT_022194 | AC011747 | 7113254 | 3 |   |   | AC021669 | 7288687 | 1 | 109228 | 2680 | 24445 | 136353 |
| S/G/Y/R/B/O |
NT_022194 | AC012495 | 7288687 | 3 | chr2 | NT_022194 | AC112723 | 7502046 | 1 | 10685 | 0 | 0 | 10685 |
| S/G/Y/R/B/O |
NT_022194 | AC112723 | 7502046 | 1 | chr2 | NT_022194 | AC093904 | 7642789 | 3 | 28814 | 0 | 0 | 28814 |
| S/G/Y/R/B/O |
NT_022194 | AC093904 | 7642789 | 3 | chr2 | NT_022194 | AC079782 | 7834616 | 3 | 0 | 1993 | 0 | 1993 |
| S/G/Y/R/B/O |
NT_022194 | AC079782 | 7834616 | 3 | chr2 | NT_022194 | AC080162 | 7918027 | 3 | 0 | 1995 | 0 | 1995 |
| S/G/Y/R/B/O |
NT_022194 | AC080162 | 7918027 | 3 | chr2 | NT_022194 | AC092206 | 8087680 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC080162 | 7918027 | 3 |   |   | AC073924 | 7642789 | 1 | 51849 | 7888 | 16896 | 76633 |
| S/G/Y/R/B/O |
NT_022194 | AC080162 | 7918027 | 3 |   |   | AP002338 | 7834616 | 1 | 29312 | 2706 | 1289 | 33307 |
| S/G/Y/R/B/O |
NT_022194 | AC092206 | 8087680 | 3 | chr2 | NT_022194 | AC073195 | 8095783 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_022194 | AC092206 | 8087680 | 3 |   |   | AP002338 | 8095783 | 1 | 10100 | 0 | 0 | 10100 |
| S/G/Y/R/B/O |
NT_022194 | AC073195 | 8095783 | 3 | chr2 | NT_022194 | AC082651 | 8192618 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_022194 | AC073195 | 8095783 | 3 |   |   | AC073924 | 8095783 | 1 | 83831 | 8705 | 436 | 92972 |
| S/G/Y/R/B/O |
NT_022194 | AC073195 | 8095783 | 3 |   |   | AP002338 | 8087680 | 1 | 56409 | 3700 | 13692 | 73801 |
| S/G/Y/R/B/O |
NT_022194 | AC082651 | 8192618 | 3 | chr2 | NT_022194 | AC010969 | 8394388 | 3 | 0 | 1994 | 0 | 1994 |
| S/G/Y/R/B/O |
NT_022194 | AC082651 | 8192618 | 3 |   |   | AC062035 | 8606877 | 1 | 63590 | 0 | 12061 | 75651 |
| S/G/Y/R/B/O |
NT_022194 | AC082651 | 8192618 | 3 |   |   | AC073924 | 8606877 | 1 | 17572 | 2691 | 0 | 20263 |
| S/G/Y/R/B/O |
NT_022194 | AC010969 | 8394388 | 3 | chr2 | NT_022194 | AC027264 | 8606877 | 1 | 111973 | 8442 | 8645 | 129060 |
| S/G/Y/R/B/O |
NT_022194 | AC010969 | 8394388 | 3 | chr2 | NT_022194 | AC104794 | 3542765 | 1 | 51239 | 0 | 0 | 51239 |
| S/G/Y/R/B/O |
NT_022194 | AC010969 | 8394388 | 3 |   |   | AC062035 | 8606877 | 1 | 72529 | 2957 | 0 | 75486 |
| S/G/Y/R/B/O |
NT_022194 | AC027264 | 8606877 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_022194 | AC027264 | 8606877 | 1 | chr2 | NT_022194 | AC104794 | 3542765 | 1 | 10429 | 2088 | 0 | 12517 |
| S/G/Y/R/B/O |
NT_022194 | AC027264 | 8606877 | 1 |   |   | AC062035 | 8394388 | 1 | 37514 | 0 | 6309 | 43823 |
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