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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_010344 | AC019135 | 30725777 | 1 | chr15 | NT_010344 | AC012271 | 30743226 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC019135 | 30725777 | 1 | chr15 | NT_010344 | AC013640 | 32763696 | 2 | 18344 | 1197 | 1157 | 20698 |
| S/G/Y/R/B/O |
NT_010344 | AC019135 | 30725777 | 1 | chr15 | NT_010344 | AC087516 | 32552743 | 2 | 27524 | 0 | 0 | 27524 |
| S/G/Y/R/B/O |
NT_010344 | AC019135 | 30725777 | 1 | chr15 | NT_010344 | AC103988 | 31764612 | 2 | 167708 | 0 | 0 | 167708 |
| S/G/Y/R/B/O |
NT_010344 | AC012271 | 30743226 | 3 | chr15 | NT_010344 | AC087457 | 30841458 | 3 | 37308 | 0 | 0 | 37308 |
| S/G/Y/R/B/O |
NT_010344 | AC012271 | 30743226 | 3 |   |   | AC069140 | 31764612 | 1 | 25996 | 2676 | 6089 | 34761 |
| S/G/Y/R/B/O |
NT_010344 | AC087457 | 30841458 | 3 | chr15 | NT_010344 | AC018868 | 30945969 | 3 | 24634 | 0 | 0 | 24634 |
| S/G/Y/R/B/O |
NT_010344 | AC087457 | 30841458 | 3 |   |   | AC069140 | 30945969 | 1 | 82816 | 6856 | 23038 | 112710 |
| S/G/Y/R/B/O |
NT_010344 | AC087457 | 30841458 | 3 |   |   | AC091056 | 30945969 | 1 | 24634 | 0 | 0 | 24634 |
| S/G/Y/R/B/O |
NT_010344 | AC018868 | 30945969 | 3 | chr15 | NT_010344 | AC080153 | 31083433 | 2 | 66415 | 0 | 2670 | 69085 |
| S/G/Y/R/B/O |
NT_010344 | AC018868 | 30945969 | 3 |   |   | AC069140 | 30945969 | 1 | 27517 | 8840 | 14436 | 50793 |
| S/G/Y/R/B/O |
NT_010344 | AC018868 | 30945969 | 3 |   |   | AC090783 | 30841458 | 1 | 99427 | 0 | 0 | 99427 |
| S/G/Y/R/B/O |
NT_010344 | AC018868 | 30945969 | 3 |   |   | AC091056 | 30841458 | 1 | 158094 | 2595 | 0 | 160689 |
| S/G/Y/R/B/O |
NT_010344 | AC080153 | 31083433 | 2 | chr15 | NT_010344 | AC021231 | 31112421 | 3 | 0 | 0 | 12003 | 12003 |
| S/G/Y/R/B/O |
NT_010344 | AC080153 | 31083433 | 2 |   |   | AC090783 | 31112421 | 1 | 65833 | 2459 | 31521 | 99813 |
| S/G/Y/R/B/O |
NT_010344 | AC080153 | 31083433 | 2 |   |   | AC091056 | 31112421 | 1 | 65610 | 0 | 2589 | 68199 |
| S/G/Y/R/B/O |
NT_010344 | AC021231 | 31112421 | 3 | chr15 | NT_010344 | AC107992 | 31291465 | 2 | 9115 | 0 | 0 | 9115 |
| S/G/Y/R/B/O |
NT_010344 | AC021231 | 31112421 | 3 |   |   | AC090783 | 31083433 | 1 | 30455 | 0 | 2607 | 33062 |
| S/G/Y/R/B/O |
NT_010344 | AC107992 | 31291465 | 2 | chr15 | NT_010344 | AC022740 | 31307131 | 3 | 124112 | 0 | 0 | 124112 |
| S/G/Y/R/B/O |
NT_010344 | AC107992 | 31291465 | 2 |   |   | AC016297 | 31291465 | 1 | 116123 | 0 | 1234 | 117357 |
| S/G/Y/R/B/O |
NT_010344 | AC022740 | 31307131 | 3 | chr15 | NT_010344 | AC019288 | 31469613 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC022740 | 31307131 | 3 |   |   | AC016297 | 31307131 | 1 | 158042 | 0 | 1234 | 159276 |
| S/G/Y/R/B/O |
NT_010344 | AC019288 | 31469613 | 3 | chr15 | NT_010344 | AC015994 | 31606128 | 2 | 4797 | 0 | 0 | 4797 |
| S/G/Y/R/B/O |
NT_010344 | AC015994 | 31606128 | 2 | chr15 | NT_010344 | AC103988 | 31764612 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC015994 | 31606128 | 2 | chr15 | NT_010344 | AC087487 | 31851845 | 2 | 84274 | 0 | 0 | 84274 |
| S/G/Y/R/B/O |
NT_010344 | AC015994 | 31606128 | 2 |   |   | AC026093 | 31469613 | 1 | 51042 | 4530 | 22796 | 78368 |
| S/G/Y/R/B/O |
NT_010344 | AC103988 | 31764612 | 2 | chr15 | NT_010344 | AC087487 | 31851845 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC103988 | 31764612 | 2 | chr15 | NT_010344 | AC019135 | 30725777 | 1 | 167708 | 0 | 0 | 167708 |
| S/G/Y/R/B/O |
NT_010344 | AC103988 | 31764612 | 2 | chr15 | NT_010344 | AC087516 | 32552743 | 2 | 113146 | 0 | 0 | 113146 |
| S/G/Y/R/B/O |
NT_010344 | AC087487 | 31851845 | 2 | chr15 | NT_010344 | AC068867 | 31903340 | 3 | 52605 | 0 | 0 | 52605 |
| S/G/Y/R/B/O |
NT_010344 | AC087487 | 31851845 | 2 | chr15 | NT_010344 | AC015994 | 31606128 | 2 | 84274 | 0 | 0 | 84274 |
| S/G/Y/R/B/O |
NT_010344 | AC087487 | 31851845 | 2 |   |   | AC026093 | 31606128 | 1 | 84687 | 12732 | 66912 | 164331 |
| S/G/Y/R/B/O |
NT_010344 | AC087487 | 31851845 | 2 |   |   | AC090815 | 31903340 | 2 | 67529 | 0 | 0 | 67529 |
| S/G/Y/R/B/O |
NT_010344 | AC068867 | 31903340 | 3 | chr15 | NT_010344 | AC100828 | 32082795 | 3 | 116011 | 0 | 0 | 116011 |
| S/G/Y/R/B/O |
NT_010344 | AC068867 | 31903340 | 3 |   |   | AC025986 | 31903340 | 1 | 93174 | 2530 | 2732 | 98436 |
| S/G/Y/R/B/O |
NT_010344 | AC068867 | 31903340 | 3 |   |   | AC026093 | 31903340 | 1 | 13909 | 1888 | 26014 | 41811 |
| S/G/Y/R/B/O |
NT_010344 | AC068867 | 31903340 | 3 |   |   | AC090815 | 31851845 | 2 | 165230 | 0 | 0 | 165230 |
| S/G/Y/R/B/O |
NT_010344 | AC100828 | 32082795 | 3 | chr15 | NT_010344 | AC040918 | 32141666 | 3 | 37556 | 0 | 0 | 37556 |
| S/G/Y/R/B/O |
NT_010344 | AC100828 | 32082795 | 3 |   |   | AC025986 | 32082795 | 1 | 140331 | 0 | 0 | 140331 |
| S/G/Y/R/B/O |
NT_010344 | AC100828 | 32082795 | 3 |   |   | AC090815 | 31903340 | 2 | 102454 | 0 | 0 | 102454 |
| S/G/Y/R/B/O |
NT_010344 | AC040918 | 32141666 | 3 | chr15 | NT_010344 | AC087466 | 32279949 | 3 | 31275 | 0 | 0 | 31275 |
| S/G/Y/R/B/O |
NT_010344 | AC040918 | 32141666 | 3 |   |   | AC025986 | 31903340 | 1 | 21963 | 0 | 1021 | 22984 |
| S/G/Y/R/B/O |
NT_010344 | AC087466 | 32279949 | 3 | chr15 | NT_010344 | AC021351 | 32313416 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC087466 | 32279949 | 3 |   |   | AC012035 | 32082795 | 1 | 63374 | 0 | 0 | 63374 |
| S/G/Y/R/B/O |
NT_010344 | AC021351 | 32313416 | 2 | chr15 | NT_010344 | AC068069 | 32458987 | 3 | 81268 | 0 | 0 | 81268 |
| S/G/Y/R/B/O |
NT_010344 | AC021351 | 32313416 | 2 |   |   | AC012035 | 32141666 | 1 | 49218 | 2545 | 39454 | 91217 |
| S/G/Y/R/B/O |
NT_010344 | AC021351 | 32313416 | 2 |   |   | AC091600 | 32458987 | 1 | 16577 | 0 | 37324 | 53901 |
| S/G/Y/R/B/O |
NT_010344 | AC068069 | 32458987 | 3 | chr15 | NT_010344 | AC087516 | 32552743 | 2 | 58791 | 0 | 0 | 58791 |
| S/G/Y/R/B/O |
NT_010344 | AC068069 | 32458987 | 3 |   |   | AC012035 | 32458987 | 1 | 10543 | 0 | 21825 | 32368 |
| S/G/Y/R/B/O |
NT_010344 | AC068069 | 32458987 | 3 |   |   | AC091600 | 32552743 | 1 | 40044 | 0 | 17491 | 57535 |
| S/G/Y/R/B/O |
NT_010344 | AC087516 | 32552743 | 2 | chr15 | NT_010344 | AC013640 | 32763696 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC087516 | 32552743 | 2 | chr15 | NT_010344 | AC019135 | 30725777 | 1 | 27524 | 0 | 0 | 27524 |
| S/G/Y/R/B/O |
NT_010344 | AC087516 | 32552743 | 2 | chr15 | NT_010344 | AC103988 | 31764612 | 2 | 113146 | 0 | 0 | 113146 |
| S/G/Y/R/B/O |
NT_010344 | AC013640 | 32763696 | 2 | chr15 | NT_010344 | AC007429 | 32913251 | 3 | 127685 | 0 | 0 | 127685 |
| S/G/Y/R/B/O |
NT_010344 | AC013640 | 32763696 | 2 | chr15 | NT_010344 | AC019135 | 30725777 | 1 | 18344 | 1197 | 1157 | 20698 |
| S/G/Y/R/B/O |
NT_010344 | AC007429 | 32913251 | 3 | chr15 | NT_010344 | AC019016 | 32945591 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_010344 | AC019016 | 32945591 | 3 | chr15 | NT_010344 | AC018563 | 32997309 | 2 | 29402 | 0 | 0 | 29402 |
| S/G/Y/R/B/O |
NT_010344 | AC018563 | 32997309 | 2 | chr15 | NT_010344 | AC069483 | 33142575 | 3 | 60015 | 0 | 0 | 60015 |
| S/G/Y/R/B/O |
NT_010344 | AC069483 | 33142575 | 3 | chr15 | NT_010344 | AC078909 | 33233810 | 3 | 71939 | 0 | 0 | 71939 |
| S/G/Y/R/B/O |
NT_010344 | AC078909 | 33233810 | 3 | chr15 | NT_010344 | AC087283 | 33332128 | 2 | 77701 | 0 | 0 | 77701 |
| S/G/Y/R/B/O |
NT_010344 | AC078909 | 33233810 | 3 | chr15 | NT_010344 | AC068618 | 33403442 | 1 | 19728 | 5761 | 14162 | 39651 |
| S/G/Y/R/B/O |
NT_010344 | AC087283 | 33332128 | 2 | chr15 | NT_010344 | AC068618 | 33403442 | 1 | 134810 | 10811 | 54135 | 199756 |
| S/G/Y/R/B/O |
NT_010344 | AC087283 | 33332128 | 2 | chr15 | NT_010344 | AC068875 | 33448076 | 3 | 13943 | 0 | 0 | 13943 |
| S/G/Y/R/B/O |
NT_010344 | AC068618 | 33403442 | 1 | chr15 | NT_010344 | AC068875 | 33448076 | 3 | 0 | 0 | 12567 | 12567 |
| S/G/Y/R/B/O |
NT_010344 | AC068618 | 33403442 | 1 | chr15 | NT_010344 | AC078909 | 33233810 | 3 | 19728 | 5761 | 14162 | 39651 |
| S/G/Y/R/B/O |
NT_010344 | AC068875 | 33448076 | 3 | chr15 | NT_010344 | AC016304 | 33614782 | 3 | 73105 | 0 | 0 | 73105 |
| S/G/Y/R/B/O |
NT_010344 | AC068875 | 33448076 | 3 | chr15 | NT_010344 | AC087283 | 33332128 | 2 | 13943 | 0 | 0 | 13943 |
| S/G/Y/R/B/O |
NT_010344 | AC068875 | 33448076 | 3 |   |   | AC020994 | 33614782 | 1 | 68337 | 0 | 0 | 68337 |
| S/G/Y/R/B/O |
NT_010344 | AC068875 | 33448076 | 3 |   |   | AP001368 | 33332128 | 1 | 54471 | 5364 | 16821 | 76656 |
| S/G/Y/R/B/O |
NT_010344 | AC016304 | 33614782 | 3 | chr15 | NT_010344 | AC110747 | 33705925 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC016304 | 33614782 | 3 |   |   | AC020994 | 33332128 | 1 | 135494 | 2921 | 0 | 138415 |
| S/G/Y/R/B/O |
NT_010344 | AC016304 | 33614782 | 3 |   |   | AP001368 | 33448076 | 1 | 107973 | 0 | 12261 | 120234 |
| S/G/Y/R/B/O |
NT_010344 | AC110747 | 33705925 | 3 | chr15 | NT_010344 | AC090605 | 33845107 | 2 | 19748 | 0 | 939 | 20687 |
| S/G/Y/R/B/O |
NT_010344 | AC090605 | 33845107 | 2 | chr15 | NT_010344 | AC105123 | 33992228 | 2 | 45316 | 0 | 0 | 45316 |
| S/G/Y/R/B/O |
NT_010344 | AC090605 | 33845107 | 2 |   |   | AC026074 | 68573953 | 1 | 152746 | 0 | 0 | 152746 |
| S/G/Y/R/B/O |
NT_010344 | AC105123 | 33992228 | 2 | chr15 | NT_010344 | AC091005 | 34068438 | 3 | 13871 | 0 | 0 | 13871 |
| S/G/Y/R/B/O |
NT_010344 | AC105123 | 33992228 | 2 | chr15 | NT_010344 | AC026861 | 34538615 | 1 | 82893 | 7862 | 5922 | 96677 |
| S/G/Y/R/B/O |
NT_010344 | AC105123 | 33992228 | 2 |   |   | AC026074 | 33705925 | 1 | 27180 | 0 | 0 | 27180 |
| S/G/Y/R/B/O |
NT_010344 | AC091005 | 34068438 | 3 | chr15 | NT_010344 | AC087473 | 34236940 | 1 | 15170 | 0 | 0 | 15170 |
| S/G/Y/R/B/O |
NT_010344 | AC091005 | 34068438 | 3 | chr15 | NT_010344 | AC026861 | 34538615 | 1 | 66128 | 2844 | 25038 | 94010 |
| S/G/Y/R/B/O |
NT_010344 | AC091005 | 34068438 | 3 | chr15 | NT_010344 | AC026863 | 34528475 | 1 | 10552 | 5375 | 1919 | 17846 |
| S/G/Y/R/B/O |
NT_010344 | AC087473 | 34236940 | 1 | chr15 | NT_010344 | AC069381 | 34341494 | 3 | 69638 | 0 | 2001 | 71639 |
| S/G/Y/R/B/O |
NT_010344 | AC087473 | 34236940 | 1 | chr15 | NT_010344 | AC026863 | 34528475 | 1 | 105607 | 20549 | 37778 | 163934 |
| S/G/Y/R/B/O |
NT_010344 | AC069381 | 34341494 | 3 | chr15 | NT_010344 | AC109631 | 34523269 | 2 | 58037 | 0 | 0 | 58037 |
| S/G/Y/R/B/O |
NT_010344 | AC069381 | 34341494 | 3 | chr15 | NT_010344 | AC026863 | 34528475 | 1 | 33581 | 9502 | 24618 | 67701 |
| S/G/Y/R/B/O |
NT_010344 | AC109631 | 34523269 | 2 | chr15 | NT_010344 | AC026863 | 34528475 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC026863 | 34528475 | 1 | chr15 | NT_010344 | AC026861 | 34538615 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010344 | AC026863 | 34528475 | 1 | chr15 | NT_010344 | AC069381 | 34341494 | 3 | 33581 | 9502 | 24618 | 67701 |
| S/G/Y/R/B/O |
NT_010344 | AC026863 | 34528475 | 1 | chr15 | NT_010344 | AC087473 | 34236940 | 1 | 105607 | 20549 | 37778 | 163934 |
| S/G/Y/R/B/O |
NT_010344 | AC026863 | 34528475 | 1 | chr15 | NT_010344 | AC091005 | 34068438 | 3 | 10552 | 5375 | 1919 | 17846 |
| S/G/Y/R/B/O |
NT_010344 | AC026861 | 34538615 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_010344 | AC026861 | 34538615 | 1 | chr15 | NT_010344 | AC091005 | 34068438 | 3 | 66128 | 2844 | 25038 | 94010 |
| S/G/Y/R/B/O |
NT_010344 | AC026861 | 34538615 | 1 | chr15 | NT_010344 | AC105123 | 33992228 | 2 | 82893 | 7862 | 5922 | 96677 |
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