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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_033240 | AC023888 | 86092447 | 1 | chr11 | NT_033240 | AP002510 | 86099020 | 1 | 91432 | 0 | 10659 | 102091 |
| S/G/Y/R/B/O |
NT_033240 | AC023888 | 86092447 | 1 | chr11 | NT_033240 | AP001642 | 86257255 | 3 | 69488 | 0 | 0 | 69488 |
| S/G/Y/R/B/O |
NT_033240 | AC023888 | 86092447 | 1 | chr11 | NT_033240 | AP003169 | 86144255 | 3 | 94146 | 0 | 18545 | 112691 |
| S/G/Y/R/B/O |
NT_033240 | AC023888 | 86092447 | 1 |   |   | AC009885 | 85837212 | 1 | 35391 | 0 | 0 | 35391 |
| S/G/Y/R/B/O |
NT_033240 | AP002510 | 86099020 | 1 | chr11 | NT_033240 | AC022004 | 86103095 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP002510 | 86099020 | 1 | chr11 | NT_033240 | AP003169 | 86144255 | 3 | 95522 | 0 | 0 | 95522 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 | chr11 | NT_033240 | AP003404 | 86108515 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 | chr11 | NT_033240 | AC026201 | 86855666 | 3 | 101334 | 7735 | 52431 | 161500 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AC021998 | 86108515 | 3 | 35451 | 10392 | 23736 | 69579 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AC022006 | 86108515 | 1 | 14984 | 2668 | 11788 | 29440 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AC034188 | 86855666 | 1 | 11041 | 6460 | 2980 | 20481 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AC078904 | 86855666 | 1 | 22712 | 8132 | 2419 | 33263 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AP000595 | 86855666 | 1 | 21917 | 0 | 3947 | 25864 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AP000653 | 86855666 | 1 | 29034 | 0 | 0 | 29034 |
| S/G/Y/R/B/O |
NT_033240 | AC022004 | 86103095 | 1 |   |   | AP003178 | 87050404 | 1 | 71209 | 7729 | 10088 | 89026 |
| S/G/Y/R/B/O |
NT_033240 | AP003404 | 86108515 | 1 | chr11 | NT_033240 | AP003169 | 86144255 | 3 | 4127 | 0 | 9963 | 14090 |
| S/G/Y/R/B/O |
NT_033240 | AP003169 | 86144255 | 3 | chr11 | NT_033240 | AP001642 | 86257255 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP003169 | 86144255 | 3 | chr11 | NT_033240 | AC023888 | 86092447 | 1 | 94146 | 0 | 18545 | 112691 |
| S/G/Y/R/B/O |
NT_033240 | AP003169 | 86144255 | 3 | chr11 | NT_033240 | AP002510 | 86099020 | 1 | 95522 | 0 | 0 | 95522 |
| S/G/Y/R/B/O |
NT_033240 | AP001642 | 86257255 | 3 | chr11 | NT_033240 | AC011088 | 86326651 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP001642 | 86257255 | 3 | chr11 | NT_033240 | AC023888 | 86092447 | 1 | 69488 | 0 | 0 | 69488 |
| S/G/Y/R/B/O |
NT_033240 | AP001642 | 86257255 | 3 |   |   | AC009885 | 86108515 | 1 | 35392 | 0 | 0 | 35392 |
| S/G/Y/R/B/O |
NT_033240 | AC011088 | 86326651 | 3 | chr11 | NT_033240 | AP000795 | 86489257 | 3 | 23512 | 0 | 0 | 23512 |
| S/G/Y/R/B/O |
NT_033240 | AC011088 | 86326651 | 3 |   |   | AC009885 | 86092447 | 1 | 94041 | 0 | 0 | 94041 |
| S/G/Y/R/B/O |
NT_033240 | AC011088 | 86326651 | 3 |   |   | AC018775 | 86661454 | 1 | 111764 | 0 | 0 | 111764 |
| S/G/Y/R/B/O |
NT_033240 | AC011088 | 86326651 | 3 |   |   | AP002362 | 86489257 | 1 | 105027 | 2407 | 1479 | 108913 |
| S/G/Y/R/B/O |
NT_033240 | AC011088 | 86326651 | 3 |   |   | AP002497 | 86489257 | 1 | 131658 | 6871 | 21085 | 159614 |
| S/G/Y/R/B/O |
NT_033240 | AP000795 | 86489257 | 3 | chr11 | NT_033240 | AP003120 | 86542744 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP000795 | 86489257 | 3 |   |   | AC018775 | 86661454 | 1 | 59024 | 0 | 0 | 59024 |
| S/G/Y/R/B/O |
NT_033240 | AP000795 | 86489257 | 3 |   |   | AP002497 | 86661454 | 1 | 22685 | 0 | 0 | 22685 |
| S/G/Y/R/B/O |
NT_033240 | AP000795 | 86489257 | 3 |   |   | AP002966 | 86661454 | 1 | 34924 | 10280 | 1434 | 46638 |
| S/G/Y/R/B/O |
NT_033240 | AP003120 | 86542744 | 3 | chr11 | NT_033240 | AC026168 | 86678012 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP003120 | 86542744 | 3 |   |   | AC024733 | 86661454 | 1 | 137995 | 0 | 0 | 137995 |
| S/G/Y/R/B/O |
NT_033240 | AP003120 | 86542744 | 3 |   |   | AC027127 | 86661454 | 1 | 16927 | 6735 | 3249 | 26911 |
| S/G/Y/R/B/O |
NT_033240 | AP003120 | 86542744 | 3 |   |   | AC040976 | 86661454 | 1 | 123109 | 0 | 0 | 123109 |
| S/G/Y/R/B/O |
NT_033240 | AP003120 | 86542744 | 3 |   |   | AP002966 | 93653178 | 1 | 113305 | 2258 | 0 | 115563 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 | chr11 | NT_033240 | AC026201 | 86855666 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC021998 | 93653178 | 3 | 40014 | 0 | 0 | 40014 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC022005 | 86103095 | 1 | 41533 | 2122 | 73029 | 116684 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC022006 | 86103095 | 1 | 91633 | 5662 | 25513 | 122808 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC022014 | 86103095 | 3 | 161180 | 0 | 0 | 161180 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC024733 | 86103095 | 1 | 86642 | 0 | 0 | 86642 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC027127 | 86103095 | 1 | 39275 | 2189 | 27096 | 68560 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AC078904 | 93653178 | 1 | 19472 | 0 | 513 | 19985 |
| S/G/Y/R/B/O |
NT_033240 | AC026168 | 86678012 | 3 |   |   | AP003030 | 93653178 | 1 | 144030 | 7826 | 0 | 151856 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 | chr11 | NT_033240 | AP001828 | 87050404 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 | chr11 | NT_033240 | AC022004 | 86103095 | 1 | 101334 | 7735 | 52431 | 161500 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AC021998 | 93653178 | 3 | 109891 | 0 | 0 | 109891 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AC022005 | 86103095 | 1 | 12496 | 0 | 6253 | 18749 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AC022006 | 86103095 | 1 | 26523 | 0 | 3740 | 30263 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AC034188 | 86103095 | 1 | 26699 | 6461 | 17017 | 50177 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AC078904 | 86103095 | 1 | 62223 | 10618 | 4105 | 76946 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AP000595 | 86103095 | 1 | 27684 | 0 | 3947 | 31631 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AP000653 | 86103095 | 1 | 49913 | 0 | 0 | 49913 |
| S/G/Y/R/B/O |
NT_033240 | AC026201 | 86855666 | 3 |   |   | AP003178 | 86103095 | 1 | 124295 | 0 | 0 | 124295 |
| S/G/Y/R/B/O |
NT_033240 | AP001828 | 87050404 | 3 | chr11 | NT_033240 | AP000626 | 87104036 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP001828 | 87050404 | 3 |   |   | AC034188 | 86103095 | 1 | 11636 | 4020 | 15827 | 31483 |
| S/G/Y/R/B/O |
NT_033240 | AP001828 | 87050404 | 3 |   |   | AP000595 | 86103095 | 1 | 54764 | 0 | 2359 | 57123 |
| S/G/Y/R/B/O |
NT_033240 | AP001828 | 87050404 | 3 |   |   | AP000653 | 86103095 | 1 | 34959 | 4521 | 2335 | 41815 |
| S/G/Y/R/B/O |
NT_033240 | AP000626 | 87104036 | 3 | chr11 | NT_033240 | AP001482 | 87207671 | 3 | 11939 | 0 | 0 | 11939 |
| S/G/Y/R/B/O |
NT_033240 | AP000626 | 87104036 | 3 |   |   | AC034188 | 86103095 | 1 | 20067 | 2046 | 3949 | 26062 |
| S/G/Y/R/B/O |
NT_033240 | AP000626 | 87104036 | 3 |   |   | AP000595 | 86103095 | 1 | 11066 | 0 | 13541 | 24607 |
| S/G/Y/R/B/O |
NT_033240 | AP000626 | 87104036 | 3 |   |   | AP000653 | 86103095 | 1 | 20144 | 2123 | 1078 | 23345 |
| S/G/Y/R/B/O |
NT_033240 | AP001482 | 87207671 | 3 | chr11 | NT_033240 | AP000720 | 87314708 | 3 | 0 | 1837 | 0 | 1837 |
| S/G/Y/R/B/O |
NT_033240 | AP000720 | 87314708 | 3 | chr11 | NT_033240 | AP001815 | 87460228 | 3 | 16038 | 0 | 0 | 16038 |
| S/G/Y/R/B/O |
NT_033240 | AP001815 | 87460228 | 3 | chr11 | NT_033240 | AP002404 | 87611839 | 3 | 9764 | 0 | 0 | 9764 |
| S/G/Y/R/B/O |
NT_033240 | AP001815 | 87460228 | 3 |   |   | AC012198 | 87460228 | 1 | 43032 | 1789 | 1002 | 45823 |
| S/G/Y/R/B/O |
NT_033240 | AP001815 | 87460228 | 3 |   |   | AC026850 | 87460228 | 1 | 57865 | 11391 | 7698 | 76954 |
| S/G/Y/R/B/O |
NT_033240 | AP001815 | 87460228 | 3 |   |   | AC036230 | 87460228 | 1 | 49999 | 0 | 1875 | 51874 |
| S/G/Y/R/B/O |
NT_033240 | AP001815 | 87460228 | 3 |   |   | AP001927 | 87314708 | 1 | 99461 | 0 | 0 | 99461 |
| S/G/Y/R/B/O |
NT_033240 | AP002404 | 87611839 | 3 | chr11 | NT_033240 | AP003400 | 87655344 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP002404 | 87611839 | 3 |   |   | AC012198 | 87611839 | 1 | 29135 | 5251 | 1418 | 35804 |
| S/G/Y/R/B/O |
NT_033240 | AP002404 | 87611839 | 3 |   |   | AP001927 | 87460228 | 1 | 50329 | 0 | 0 | 50329 |
| S/G/Y/R/B/O |
NT_033240 | AP003400 | 87655344 | 3 | chr11 | NT_033240 | AP003122 | 87788017 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP003400 | 87655344 | 3 | chr11 | NT_033240 | AC024234 | 88076660 | 1 | 53690 | 5271 | 2086 | 61047 |
| S/G/Y/R/B/O |
NT_033240 | AP003400 | 87655344 | 3 |   |   | AC012198 | 87460228 | 1 | 74118 | 1943 | 0 | 76061 |
| S/G/Y/R/B/O |
NT_033240 | AP003400 | 87655344 | 3 |   |   | AP001927 | 88076660 | 1 | 40366 | 0 | 0 | 40366 |
| S/G/Y/R/B/O |
NT_033240 | AP003122 | 87788017 | 3 | chr11 | NT_033240 | AP004833 | 87923064 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP003122 | 87788017 | 3 | chr11 | NT_033240 | AC024234 | 88076660 | 1 | 109682 | 6500 | 10895 | 127077 |
| S/G/Y/R/B/O |
NT_033240 | AP003122 | 87788017 | 3 |   |   | AP001769 | 88063293 | 1 | 43234 | 0 | 0 | 43234 |
| S/G/Y/R/B/O |
NT_033240 | AP004833 | 87923064 | 3 | chr11 | NT_033240 | AP004607 | 87943193 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_033240 | AP004833 | 87923064 | 3 | chr11 | NT_008984 | U73646 | 88130481 | 3 | 35319 | 0 | 0 | 35319 |
| S/G/Y/R/B/O |
NT_033240 | AP004833 | 87923064 | 3 |   |   | AP001769 | 88063293 | 1 | 17809 | 0 | 1134 | 18943 |
| S/G/Y/R/B/O |
NT_033240 | AP004607 | 87943193 | 3 | chr11 | NT_033240 | AC060830 | 88063293 | 1 | 106299 | 0 | 0 | 106299 |
| S/G/Y/R/B/O |
NT_033240 | AC060830 | 88063293 | 1 | chr11 | NT_033240 | AC024234 | 88076660 | 1 | 10119 | 0 | 0 | 10119 |
| S/G/Y/R/B/O |
NT_033240 | AC060830 | 88063293 | 1 | chr11 | NT_008984 | AP000827 | 88165804 | 3 | 40700 | 1457 | 0 | 42157 |
| S/G/Y/R/B/O |
NT_033240 | AC060830 | 88063293 | 1 |   |   | AP001769 | 88165804 | 1 | 38469 | 0 | 0 | 38469 |
| S/G/Y/R/B/O |
NT_033240 | AC024234 | 88076660 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_033240 | AC024234 | 88076660 | 1 | chr11 | NT_008984 | AP000827 | 88165804 | 3 | 27569 | 0 | 8121 | 35690 |
| S/G/Y/R/B/O |
NT_033240 | AC024234 | 88076660 | 1 | chr11 | NT_033240 | AP003122 | 87788017 | 3 | 109682 | 6500 | 10895 | 127077 |
| S/G/Y/R/B/O |
NT_033240 | AC024234 | 88076660 | 1 | chr11 | NT_033240 | AP003400 | 87655344 | 3 | 53690 | 5271 | 2086 | 61047 |
| S/G/Y/R/B/O |
NT_033240 | AC024234 | 88076660 | 1 |   |   | AP001769 | 88165804 | 1 | 27562 | 0 | 7985 | 35547 |
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