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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_010352 | AC108457 | 89618855 | 2 | chr15 | NT_010352 | AC011129 | 89624763 | 1 | 114242 | 0 | 0 | 114242 |
| S/G/Y/R/B/O |
NT_010352 | AC108457 | 89618855 | 2 | chr15 | NT_010352 | AC074383 | 91747855 | 1 | 29710 | 2729 | 6819 | 39258 |
| S/G/Y/R/B/O |
NT_010352 | AC108457 | 89618855 | 2 | chr15 | NT_010352 | AC112693 | 89667152 | 2 | 34228 | 0 | 548 | 34776 |
| S/G/Y/R/B/O |
NT_010352 | AC011129 | 89624763 | 1 | chr15 | NT_010352 | AC112693 | 89667152 | 2 | 46557 | 0 | 2075 | 48632 |
| S/G/Y/R/B/O |
NT_010352 | AC011129 | 89624763 | 1 | chr15 | NT_010352 | AC074383 | 91747855 | 1 | 29724 | 2769 | 17092 | 49585 |
| S/G/Y/R/B/O |
NT_010352 | AC112693 | 89667152 | 2 | chr15 | NT_010352 | AC023114 | 89737198 | 3 | 142680 | 0 | 0 | 142680 |
| S/G/Y/R/B/O |
NT_010352 | AC112693 | 89667152 | 2 | chr15 | NT_010352 | AC108457 | 89618855 | 2 | 34228 | 0 | 548 | 34776 |
| S/G/Y/R/B/O |
NT_010352 | AC112693 | 89667152 | 2 |   |   | AC090606 | 89737198 | 1 | 135608 | 2096 | 0 | 137704 |
| S/G/Y/R/B/O |
NT_010352 | AC023114 | 89737198 | 3 | chr15 | NT_010352 | AC091078 | 89821134 | 1 | 0 | 0 | 2653 | 2653 |
| S/G/Y/R/B/O |
NT_010352 | AC023114 | 89737198 | 3 |   |   | AC090606 | 90170085 | 1 | 158189 | 0 | 0 | 158189 |
| S/G/Y/R/B/O |
NT_010352 | AC091078 | 89821134 | 1 | chr15 | NT_010352 | AC107958 | 89821505 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC091078 | 89821134 | 1 | chr15 | NT_010352 | AC024262 | 90170085 | 1 | 69735 | 0 | 90733 | 160468 |
| S/G/Y/R/B/O |
NT_010352 | AC091078 | 89821134 | 1 | chr15 | NT_010352 | AC110023 | 90328086 | 2 | 14607 | 0 | 845 | 15452 |
| S/G/Y/R/B/O |
NT_010352 | AC107958 | 89821505 | 2 | chr15 | NT_010352 | AC104034 | 89853004 | 3 | 155809 | 0 | 0 | 155809 |
| S/G/Y/R/B/O |
NT_010352 | AC107958 | 89821505 | 2 | chr15 | NT_010352 | AC107946 | 89870711 | 2 | 46737 | 0 | 0 | 46737 |
| S/G/Y/R/B/O |
NT_010352 | AC104034 | 89853004 | 3 | chr15 | NT_010352 | AC107946 | 89870711 | 2 | 144899 | 0 | 0 | 144899 |
| S/G/Y/R/B/O |
NT_010352 | AC107946 | 89870711 | 2 | chr15 | NT_010352 | AC105109 | 89997368 | 2 | 21179 | 0 | 0 | 21179 |
| S/G/Y/R/B/O |
NT_010352 | AC107946 | 89870711 | 2 | chr15 | NT_010352 | AC107958 | 89821505 | 2 | 46737 | 0 | 0 | 46737 |
| S/G/Y/R/B/O |
NT_010352 | AC105109 | 89997368 | 2 | chr15 | NT_010352 | AC104020 | 90073483 | 2 | 95288 | 0 | 0 | 95288 |
| S/G/Y/R/B/O |
NT_010352 | AC104020 | 90073483 | 2 | chr15 | NT_010352 | AC024262 | 90170085 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC104020 | 90073483 | 2 | chr15 | NT_010352 | AC104236 | 90737682 | 3 | 19680 | 0 | 0 | 19680 |
| S/G/Y/R/B/O |
NT_010352 | AC024262 | 90170085 | 1 | chr15 | NT_010352 | AC110023 | 90328086 | 2 | 24089 | 0 | 0 | 24089 |
| S/G/Y/R/B/O |
NT_010352 | AC024262 | 90170085 | 1 | chr15 | NT_010352 | AC091078 | 89821134 | 1 | 69735 | 0 | 90733 | 160468 |
| S/G/Y/R/B/O |
NT_010352 | AC110023 | 90328086 | 2 | chr15 | NT_010352 | AC090762 | 90495061 | 3 | 137084 | 0 | 0 | 137084 |
| S/G/Y/R/B/O |
NT_010352 | AC110023 | 90328086 | 2 | chr15 | NT_010352 | AC091078 | 89821134 | 1 | 14607 | 0 | 845 | 15452 |
| S/G/Y/R/B/O |
NT_010352 | AC110023 | 90328086 | 2 | chr15 | NT_010352 | AC107979 | 90550466 | 2 | 31022 | 0 | 0 | 31022 |
| S/G/Y/R/B/O |
NT_010352 | AC090762 | 90495061 | 3 | chr15 | NT_010352 | AC107979 | 90550466 | 2 | 86146 | 0 | 0 | 86146 |
| S/G/Y/R/B/O |
NT_010352 | AC107979 | 90550466 | 2 | chr15 | NT_010352 | AC103996 | 90612763 | 2 | 29907 | 0 | 0 | 29907 |
| S/G/Y/R/B/O |
NT_010352 | AC107979 | 90550466 | 2 | chr15 | NT_010352 | AC110023 | 90328086 | 2 | 31022 | 0 | 0 | 31022 |
| S/G/Y/R/B/O |
NT_010352 | AC103996 | 90612763 | 2 | chr15 | NT_010352 | AC104236 | 90737682 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC103996 | 90612763 | 2 |   |   | AL365198 | 90550466 | 1 | 72873 | 0 | 0 | 72873 |
| S/G/Y/R/B/O |
NT_010352 | AC104236 | 90737682 | 3 | chr15 | NT_010352 | AC068012 | 90815931 | 1 | 62387 | 0 | 0 | 62387 |
| S/G/Y/R/B/O |
NT_010352 | AC104236 | 90737682 | 3 | chr15 | NT_010352 | AC006407 | 90877797 | 1 | 12174 | 0 | 27968 | 40142 |
| S/G/Y/R/B/O |
NT_010352 | AC104236 | 90737682 | 3 | chr15 | NT_010352 | AC104020 | 90073483 | 2 | 19680 | 0 | 0 | 19680 |
| S/G/Y/R/B/O |
NT_010352 | AC104236 | 90737682 | 3 |   |   | AC113190 | 90073483 | 2 | 46872 | 0 | 0 | 46872 |
| S/G/Y/R/B/O |
NT_010352 | AC068012 | 90815931 | 1 | chr15 | NT_010352 | AC006407 | 90877797 | 1 | 27024 | 1557 | 12518 | 41099 |
| S/G/Y/R/B/O |
NT_010352 | AC068012 | 90815931 | 1 | chr15 | NT_010352 | AC005319 | 90967372 | 3 | 24797 | 0 | 0 | 24797 |
| S/G/Y/R/B/O |
NT_010352 | AC068012 | 90815931 | 1 |   |   | AC113190 | 90737682 | 2 | 131088 | 0 | 0 | 131088 |
| S/G/Y/R/B/O |
NT_010352 | AC006407 | 90877797 | 1 | chr15 | NT_010352 | AC005319 | 90967372 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC006407 | 90877797 | 1 | chr15 | NT_010352 | AC104236 | 90737682 | 3 | 12174 | 0 | 27968 | 40142 |
| S/G/Y/R/B/O |
NT_010352 | AC006407 | 90877797 | 1 |   |   | AC113190 | 90737682 | 2 | 28402 | 1557 | 0 | 29959 |
| S/G/Y/R/B/O |
NT_010352 | AC005319 | 90967372 | 3 | chr15 | NT_010352 | AC022372 | 91042797 | 1 | 29120 | 0 | 0 | 29120 |
| S/G/Y/R/B/O |
NT_010352 | AC005319 | 90967372 | 3 | chr15 | NT_010352 | AC068012 | 90815931 | 1 | 24797 | 0 | 0 | 24797 |
| S/G/Y/R/B/O |
NT_010352 | AC005319 | 90967372 | 3 |   |   | AC113190 | 90815931 | 2 | 26552 | 0 | 0 | 26552 |
| S/G/Y/R/B/O |
NT_010352 | AC022372 | 91042797 | 1 | chr15 | NT_010352 | AC106028 | 91123897 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC022372 | 91042797 | 1 | chr15 | NT_010352 | AC090985 | 91221206 | 3 | 44756 | 0 | 0 | 44756 |
| S/G/Y/R/B/O |
NT_010352 | AC022372 | 91042797 | 1 |   |   | AC024071 | 90967372 | 1 | 36730 | 0 | 0 | 36730 |
| S/G/Y/R/B/O |
NT_010352 | AC106028 | 91123897 | 2 | chr15 | NT_010352 | AC090985 | 91221206 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC090985 | 91221206 | 3 | chr15 | NT_010352 | AC091580 | 91407284 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC090985 | 91221206 | 3 | chr15 | NT_010352 | AC022372 | 91042797 | 1 | 44756 | 0 | 0 | 44756 |
| S/G/Y/R/B/O |
NT_010352 | AC090985 | 91221206 | 3 |   |   | AC020563 | 135177132 | 1 | 108587 | 0 | 0 | 108587 |
| S/G/Y/R/B/O |
NT_010352 | AC090985 | 91221206 | 3 |   |   | AC024071 | 91042797 | 1 | 129243 | 7485 | 20862 | 157590 |
| S/G/Y/R/B/O |
NT_010352 | AC091580 | 91407284 | 3 | chr15 | NT_010352 | AC012478 | 91487606 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC091580 | 91407284 | 3 |   |   | AC020563 | 91042797 | 1 | 108358 | 0 | 0 | 108358 |
| S/G/Y/R/B/O |
NT_010352 | AC091580 | 91407284 | 3 |   |   | AC024071 | 91042797 | 1 | 19041 | 4527 | 2025 | 25593 |
| S/G/Y/R/B/O |
NT_010352 | AC091580 | 91407284 | 3 |   |   | AC025824 | 91042797 | 3 | 63227 | 0 | 0 | 63227 |
| S/G/Y/R/B/O |
NT_010352 | AC012478 | 91487606 | 3 | chr15 | NT_010352 | AC074383 | 91747855 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_010352 | AC012478 | 91487606 | 3 |   |   | AC025824 | 91042797 | 3 | 127737 | 0 | 0 | 127737 |
| S/G/Y/R/B/O |
NT_010352 | AC012478 | 91487606 | 3 |   |   | AC091544 | 91042797 | 1 | 180998 | 0 | 0 | 180998 |
| S/G/Y/R/B/O |
NT_010352 | AC074383 | 91747855 | 1 | chr15 | NT_010352 | AC013394 | 91826471 | 3 | 126980 | 0 | 0 | 126980 |
| S/G/Y/R/B/O |
NT_010352 | AC074383 | 91747855 | 1 | chr15 | NT_010352 | AC011129 | 89624763 | 1 | 29724 | 2769 | 17092 | 49585 |
| S/G/Y/R/B/O |
NT_010352 | AC074383 | 91747855 | 1 | chr15 | NT_010352 | AC108457 | 89618855 | 2 | 29710 | 2729 | 6819 | 39258 |
| S/G/Y/R/B/O |
NT_010352 | AC013394 | 91826471 | 3 |   |   |   |   |   |   |   |   |   |
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