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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_010178 | AC019094 | 21705044 | 1 | chr15 | NT_010178 | AC090983 | 21712711 | 2 | 93890 | 16167 | 20982 | 131039 |
| S/G/Y/R/B/O |
NT_010178 | AC019094 | 21705044 | 1 | chr15 | NT_010178 | AC004737 | 21814817 | 1 | 73445 | 0 | 22768 | 96213 |
| S/G/Y/R/B/O |
NT_010178 | AC019094 | 21705044 | 1 | chr15 | NT_010178 | AC006412 | 21951023 | 1 | 18942 | 2079 | 0 | 21021 |
| S/G/Y/R/B/O |
NT_010178 | AC019094 | 21705044 | 1 |   |   | AC090602 | 21944083 | 2 | 129866 | 4164 | 23894 | 157924 |
| S/G/Y/R/B/O |
NT_010178 | AC090983 | 21712711 | 2 | chr15 | NT_010178 | AC004737 | 21814817 | 1 | 0 | 0 | 19218 | 19218 |
| S/G/Y/R/B/O |
NT_010178 | AC090983 | 21712711 | 2 | chr15 | NT_010178 | AC006412 | 21951023 | 1 | 23117 | 0 | 0 | 23117 |
| S/G/Y/R/B/O |
NT_010178 | AC090983 | 21712711 | 2 | chr15 | NT_010178 | AC026049 | 21944083 | 1 | 24646 | 0 | 37702 | 62348 |
| S/G/Y/R/B/O |
NT_010178 | AC090983 | 21712711 | 2 |   |   | AC090602 | 21944083 | 2 | 175508 | 0 | 0 | 175508 |
| S/G/Y/R/B/O |
NT_010178 | AC004737 | 21814817 | 1 | chr15 | NT_010178 | AC026049 | 21944083 | 1 | 32584 | 3901 | 32051 | 68536 |
| S/G/Y/R/B/O |
NT_010178 | AC004737 | 21814817 | 1 | chr15 | NT_010178 | AC006412 | 21951023 | 1 | 50284 | 0 | 0 | 50284 |
| S/G/Y/R/B/O |
NT_010178 | AC004737 | 21814817 | 1 | chr15 | NT_010178 | AC019094 | 21705044 | 1 | 73445 | 0 | 22768 | 96213 |
| S/G/Y/R/B/O |
NT_010178 | AC026049 | 21944083 | 1 | chr15 | NT_010178 | AC006412 | 21951023 | 1 | 4311 | 2226 | 19188 | 25725 |
| S/G/Y/R/B/O |
NT_010178 | AC026049 | 21944083 | 1 | chr15 | NT_010178 | AC090983 | 21712711 | 2 | 24646 | 0 | 37702 | 62348 |
| S/G/Y/R/B/O |
NT_010178 | AC026049 | 21944083 | 1 |   |   | AC090602 | 69382702 | 2 | 71755 | 8016 | 179148 | 258919 |
| S/G/Y/R/B/O |
NT_010178 | AC006412 | 21951023 | 1 | chr15 | NT_010178 | AC090080 | 21961252 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010178 | AC006412 | 21951023 | 1 | chr15 | NT_010178 | AC004737 | 21814817 | 1 | 50284 | 0 | 0 | 50284 |
| S/G/Y/R/B/O |
NT_010178 | AC006412 | 21951023 | 1 | chr15 | NT_010178 | AC019094 | 21705044 | 1 | 18942 | 2079 | 0 | 21021 |
| S/G/Y/R/B/O |
NT_010178 | AC006412 | 21951023 | 1 | chr15 | NT_010178 | AC090983 | 21712711 | 2 | 23117 | 0 | 0 | 23117 |
| S/G/Y/R/B/O |
NT_010178 | AC090080 | 21961252 | 1 | chr15 | NT_010178 | U41384 | 21965887 | 3 | 9975 | 0 | 0 | 9975 |
| S/G/Y/R/B/O |
NT_010178 | AC090080 | 21961252 | 1 | chr15 | NT_010178 | AC009696 | 21968979 | 2 | 86767 | 1705 | 11289 | 99761 |
| S/G/Y/R/B/O |
NT_010178 | U41384 | 21965887 | 3 | chr15 | NT_010178 | AC009696 | 21968979 | 2 | 30520 | 0 | 0 | 30520 |
| S/G/Y/R/B/O |
NT_010178 | U41384 | 21965887 | 3 |   |   | AC090602 | 21961252 | 2 | 21125 | 0 | 0 | 21125 |
| S/G/Y/R/B/O |
NT_010178 | AC009696 | 21968979 | 2 | chr15 | NT_010178 | AF250841 | 22127817 | 3 | 10973 | 0 | 0 | 10973 |
| S/G/Y/R/B/O |
NT_010178 | AC009696 | 21968979 | 2 | chr15 | NT_010178 | AC090080 | 21961252 | 1 | 86767 | 1705 | 11289 | 99761 |
| S/G/Y/R/B/O |
NT_010178 | AC009696 | 21968979 | 2 |   |   | AC090602 | 21961252 | 2 | 15812 | 0 | 0 | 15812 |
| S/G/Y/R/B/O |
NT_010178 | AF250841 | 22127817 | 3 | chr15 | NT_010178 | AC084009 | 22344860 | 1 | 19563 | 0 | 90641 | 110204 |
| S/G/Y/R/B/O |
NT_010178 | AF250841 | 22127817 | 3 |   |   | AC080077 | 21968979 | 1 | 106204 | 0 | 42207 | 148411 |
| S/G/Y/R/B/O |
NT_010178 | AF250841 | 22127817 | 3 |   |   | AC100774 | 22344860 | 1 | 111709 | 0 | 0 | 111709 |
| S/G/Y/R/B/O |
NT_010178 | AC084009 | 22344860 | 1 | chr15 | NT_010178 | AC004600 | 22356551 | 3 | 52578 | 4552 | 0 | 57130 |
| S/G/Y/R/B/O |
NT_010178 | AC084009 | 22344860 | 1 |   |   | AC004259 | 22344860 | 3 | 28371 | 2315 | 0 | 30686 |
| S/G/Y/R/B/O |
NT_010178 | AC084009 | 22344860 | 1 |   |   | AC080077 | 22356551 | 1 | 24976 | 0 | 0 | 24976 |
| S/G/Y/R/B/O |
NT_010178 | AC084009 | 22344860 | 1 |   |   | AC100774 | 22356551 | 1 | 75243 | 4551 | 99783 | 179577 |
| S/G/Y/R/B/O |
NT_010178 | AC004600 | 22356551 | 3 | chr15 | NT_010178 | AC004738 | 22490414 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010178 | AC004600 | 22356551 | 3 |   |   | AC004259 | 22127817 | 3 | 113006 | 0 | 0 | 113006 |
| S/G/Y/R/B/O |
NT_010178 | AC004600 | 22356551 | 3 |   |   | AC100774 | 22344860 | 1 | 59818 | 0 | 0 | 59818 |
| S/G/Y/R/B/O |
NT_010178 | AC004738 | 22490414 | 3 | chr15 | NT_010178 | AC023449 | 22618316 | 2 | 37618 | 0 | 0 | 37618 |
| S/G/Y/R/B/O |
NT_010178 | AC004738 | 22490414 | 3 | chr15 | NT_010178 | AC020639 | 23095743 | 1 | 32622 | 0 | 0 | 32622 |
| S/G/Y/R/B/O |
NT_010178 | AC004738 | 22490414 | 3 |   |   | AC004259 | 22344860 | 3 | 25180 | 0 | 0 | 25180 |
| S/G/Y/R/B/O |
NT_010178 | AC023449 | 22618316 | 2 | chr15 | NT_010178 | AC109512 | 22755852 | 2 | 71959 | 2882 | 38089 | 112930 |
| S/G/Y/R/B/O |
NT_010178 | AC023449 | 22618316 | 2 | chr15 | NT_010178 | AC020639 | 23095743 | 1 | 133149 | 0 | 0 | 133149 |
| S/G/Y/R/B/O |
NT_010178 | AC109512 | 22755852 | 2 | chr15 | NT_010178 | AC016266 | 22832774 | 2 | 39287 | 0 | 0 | 39287 |
| S/G/Y/R/B/O |
NT_010178 | AC109512 | 22755852 | 2 | chr15 | NT_010178 | AC020639 | 23095743 | 1 | 70740 | 0 | 0 | 70740 |
| S/G/Y/R/B/O |
NT_010178 | AC016266 | 22832774 | 2 | chr15 | NT_010178 | AC044913 | 22895769 | 1 | 47046 | 0 | 0 | 47046 |
| S/G/Y/R/B/O |
NT_010178 | AC044913 | 22895769 | 1 | chr15 | NT_010178 | AC006598 | 23030374 | 2 | 67209 | 0 | 22624 | 89833 |
| S/G/Y/R/B/O |
NT_010178 | AC006598 | 23030374 | 2 | chr15 | NT_010178 | AC009798 | 23072158 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010178 | AC009798 | 23072158 | 1 | chr15 | NT_010178 | AC020639 | 23095743 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010178 | AC020639 | 23095743 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_010178 | AC020639 | 23095743 | 1 | chr15 | NT_010178 | AC004738 | 22490414 | 3 | 32622 | 0 | 0 | 32622 |
| S/G/Y/R/B/O |
NT_010178 | AC020639 | 23095743 | 1 | chr3 | NT_025670 | AC012154 | 108535400 | 1 | 33925 | 2565 | 0 | 36490 |
| S/G/Y/R/B/O |
NT_010178 | AC020639 | 23095743 | 1 | chr15 | NT_010178 | AC023449 | 22618316 | 2 | 133149 | 0 | 0 | 133149 |
| S/G/Y/R/B/O |
NT_010178 | AC020639 | 23095743 | 1 | chr15 | NT_010178 | AC109512 | 22755852 | 2 | 70740 | 0 | 0 | 70740 |
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