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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_006256 | AC107222 | 189044806 | 1 | chr4 | NT_006256 | AC103540 | 189090472 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC107222 | 189044806 | 1 | chr4 | NT_006256 | AC040939 | 189294954 | 1 | 15835 | 0 | 0 | 15835 |
| S/G/Y/R/B/O |
NT_006256 | AC107222 | 189044806 | 1 | chr4 | NT_006256 | AC074194 | 190260540 | 3 | 10536 | 0 | 0 | 10536 |
| S/G/Y/R/B/O |
NT_006256 | AC107222 | 189044806 | 1 | chr4 | NT_006256 | AC079080 | 189197176 | 3 | 77211 | 0 | 0 | 77211 |
| S/G/Y/R/B/O |
NT_006256 | AC107222 | 189044806 | 1 |   |   | AL590713 | 189197176 | 1 | 109041 | 0 | 20790 | 129831 |
| S/G/Y/R/B/O |
NT_006256 | AC103540 | 189090472 | 1 | chr4 | NT_006256 | AC079080 | 189197176 | 3 | 40204 | 0 | 0 | 40204 |
| S/G/Y/R/B/O |
NT_006256 | AC103540 | 189090472 | 1 | chr4 | NT_006256 | AC040939 | 189294954 | 1 | 51384 | 5560 | 16054 | 72998 |
| S/G/Y/R/B/O |
NT_006256 | AC103540 | 189090472 | 1 | chr4 | NT_006256 | AC099343 | 189362996 | 3 | 69499 | 0 | 7629 | 77128 |
| S/G/Y/R/B/O |
NT_006256 | AC103540 | 189090472 | 1 |   |   | AL365358 | 43130347 | 1 | 113179 | 18154 | 22742 | 154075 |
| S/G/Y/R/B/O |
NT_006256 | AC079080 | 189197176 | 3 | chr4 | NT_006256 | AC040939 | 189294954 | 1 | 73295 | 5560 | 9213 | 88068 |
| S/G/Y/R/B/O |
NT_006256 | AC079080 | 189197176 | 3 | chr4 | NT_006256 | AC107222 | 189044806 | 1 | 77211 | 0 | 0 | 77211 |
| S/G/Y/R/B/O |
NT_006256 | AC079080 | 189197176 | 3 |   |   | AL365358 | 189044806 | 1 | 13485 | 4942 | 12442 | 30869 |
| S/G/Y/R/B/O |
NT_006256 | AC079080 | 189197176 | 3 |   |   | AL590713 | 189044806 | 1 | 106475 | 0 | 0 | 106475 |
| S/G/Y/R/B/O |
NT_006256 | AC040939 | 189294954 | 1 | chr4 | NT_006256 | AC099343 | 189362996 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC040939 | 189294954 | 1 | chr4 | NT_006256 | AC103540 | 189090472 | 1 | 51384 | 5560 | 16054 | 72998 |
| S/G/Y/R/B/O |
NT_006256 | AC040939 | 189294954 | 1 | chr4 | NT_006256 | AC107222 | 189044806 | 1 | 15835 | 0 | 0 | 15835 |
| S/G/Y/R/B/O |
NT_006256 | AC040939 | 189294954 | 1 |   |   | AL365358 | 189044806 | 1 | 36704 | 4939 | 14350 | 55993 |
| S/G/Y/R/B/O |
NT_006256 | AC040939 | 189294954 | 1 |   |   | AL590713 | 189044806 | 1 | 52664 | 0 | 0 | 52664 |
| S/G/Y/R/B/O |
NT_006256 | AC099343 | 189362996 | 3 | chr4 | NT_006256 | AC073932 | 189559212 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC099343 | 189362996 | 3 | chr4 | NT_006256 | AC084049 | 189605429 | 1 | 87925 | 2443 | 0 | 90368 |
| S/G/Y/R/B/O |
NT_006256 | AC099343 | 189362996 | 3 | chr4 | NT_006256 | AC103540 | 189090472 | 1 | 69499 | 0 | 7629 | 77128 |
| S/G/Y/R/B/O |
NT_006256 | AC099343 | 189362996 | 3 |   |   | AL365358 | 57360763 | 1 | 44861 | 7860 | 6129 | 58850 |
| S/G/Y/R/B/O |
NT_006256 | AC073932 | 189559212 | 3 | chr4 | NT_006256 | AC084049 | 189605429 | 1 | 31739 | 0 | 7958 | 39697 |
| S/G/Y/R/B/O |
NT_006256 | AC073932 | 189559212 | 3 | chr4 | NT_006256 | AC060790 | 189625940 | 2 | 39203 | 0 | 0 | 39203 |
| S/G/Y/R/B/O |
NT_006256 | AC084049 | 189605429 | 1 | chr4 | NT_006256 | AC060790 | 189625940 | 2 | 47827 | 2870 | 9400 | 60097 |
| S/G/Y/R/B/O |
NT_006256 | AC084049 | 189605429 | 1 | chr4 | NT_006256 | AC079257 | 189653482 | 1 | 22476 | 0 | 1258 | 23734 |
| S/G/Y/R/B/O |
NT_006256 | AC084049 | 189605429 | 1 | chr4 | NT_006256 | AC099343 | 189362996 | 3 | 87925 | 2443 | 0 | 90368 |
| S/G/Y/R/B/O |
NT_006256 | AC060790 | 189625940 | 2 | chr4 | NT_006256 | AC079257 | 189653482 | 1 | 118768 | 0 | 51201 | 169969 |
| S/G/Y/R/B/O |
NT_006256 | AC060790 | 189625940 | 2 | chr4 | NT_006256 | AC073932 | 189559212 | 3 | 39203 | 0 | 0 | 39203 |
| S/G/Y/R/B/O |
NT_006256 | AC060790 | 189625940 | 2 | chr4 | NT_006256 | AC084871 | 190694305 | 1 | 38774 | 0 | 0 | 38774 |
| S/G/Y/R/B/O |
NT_006256 | AC060790 | 189625940 | 2 |   |   | AC024441 | 189362996 | 1 | 59037 | 8636 | 4586 | 72259 |
| S/G/Y/R/B/O |
NT_006256 | AC079257 | 189653482 | 1 | chr4 | NT_006256 | AC080070 | 189654627 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC079257 | 189653482 | 1 | chr4 | NT_006256 | AC068307 | 190747343 | 1 | 19087 | 0 | 41228 | 60315 |
| S/G/Y/R/B/O |
NT_006256 | AC079257 | 189653482 | 1 | chr4 | NT_006256 | AC084049 | 189605429 | 1 | 22476 | 0 | 1258 | 23734 |
| S/G/Y/R/B/O |
NT_006256 | AC079257 | 189653482 | 1 | chr4 | NT_006256 | AC084871 | 190694305 | 1 | 43988 | 0 | 0 | 43988 |
| S/G/Y/R/B/O |
NT_006256 | AC079257 | 189653482 | 1 |   |   | AC024441 | 190694305 | 1 | 47418 | 8687 | 0 | 56105 |
| S/G/Y/R/B/O |
NT_006256 | AC080070 | 189654627 | 1 | chr4 | NT_006256 | AC079766 | 189661997 | 1 | 71953 | 2020 | 33442 | 107415 |
| S/G/Y/R/B/O |
NT_006256 | AC080070 | 189654627 | 1 | chr4 | NT_006256 | AC019193 | 189837190 | 3 | 72305 | 2020 | 7373 | 81698 |
| S/G/Y/R/B/O |
NT_006256 | AC079766 | 189661997 | 1 | chr4 | NT_006256 | AC019193 | 189837190 | 3 | 44716 | 0 | 0 | 44716 |
| S/G/Y/R/B/O |
NT_006256 | AC079766 | 189661997 | 1 |   |   | L39874 | 189654627 | 3 | 26682 | 0 | 0 | 26682 |
| S/G/Y/R/B/O |
NT_006256 | AC019193 | 189837190 | 3 | chr4 | NT_006256 | AC099397 | 189968351 | 3 | 0 | 1987 | 0 | 1987 |
| S/G/Y/R/B/O |
NT_006256 | AC019193 | 189837190 | 3 | chr4 | NT_006256 | AC080070 | 189654627 | 1 | 72305 | 2020 | 7373 | 81698 |
| S/G/Y/R/B/O |
NT_006256 | AC099397 | 189968351 | 3 | chr4 | NT_006256 | AC093844 | 190066358 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC093844 | 190066358 | 3 | chr4 | NT_006256 | AC114911 | 190211294 | 1 | 116078 | 0 | 0 | 116078 |
| S/G/Y/R/B/O |
NT_006256 | AC093844 | 190066358 | 3 | chr4 | NT_006256 | AC112698 | 190225774 | 1 | 81272 | 0 | 0 | 81272 |
| S/G/Y/R/B/O |
NT_006256 | AC114911 | 190211294 | 1 | chr4 | NT_006256 | AC112698 | 190225774 | 1 | 127346 | 1319 | 7263 | 135928 |
| S/G/Y/R/B/O |
NT_006256 | AC112698 | 190225774 | 1 | chr4 | NT_006256 | AC074194 | 190260540 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC112698 | 190225774 | 1 | chr4 | NT_006256 | AC093844 | 190066358 | 3 | 81272 | 0 | 0 | 81272 |
| S/G/Y/R/B/O |
NT_006256 | AC112698 | 190225774 | 1 | chr4 | NT_006256 | AC107214 | 190937668 | 1 | 69431 | 0 | 0 | 69431 |
| S/G/Y/R/B/O |
NT_006256 | AC074194 | 190260540 | 3 | chr4 | NT_006256 | AC105311 | 190435813 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC074194 | 190260540 | 3 | chr4 | NT_006256 | AC107222 | 189044806 | 1 | 10536 | 0 | 0 | 10536 |
| S/G/Y/R/B/O |
NT_006256 | AC105311 | 190435813 | 3 | chr4 | NT_006256 | AC108477 | 190520365 | 1 | 46300 | 0 | 0 | 46300 |
| S/G/Y/R/B/O |
NT_006256 | AC108477 | 190520365 | 1 | chr4 | NT_006256 | AC084871 | 190694305 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC108477 | 190520365 | 1 | chr4 | NT_006256 | AC107214 | 190937668 | 1 | 21741 | 0 | 0 | 21741 |
| S/G/Y/R/B/O |
NT_006256 | AC084871 | 190694305 | 1 | chr4 | NT_006256 | AC068307 | 190747343 | 1 | 75199 | 0 | 14314 | 89513 |
| S/G/Y/R/B/O |
NT_006256 | AC084871 | 190694305 | 1 | chr4 | NT_006256 | AC060790 | 189625940 | 2 | 38774 | 0 | 0 | 38774 |
| S/G/Y/R/B/O |
NT_006256 | AC084871 | 190694305 | 1 | chr4 | NT_006256 | AC079257 | 189653482 | 1 | 43988 | 0 | 0 | 43988 |
| S/G/Y/R/B/O |
NT_006256 | AC084871 | 190694305 | 1 |   |   | AC024441 | 190937668 | 1 | 64014 | 22975 | 1198 | 88187 |
| S/G/Y/R/B/O |
NT_006256 | AC084871 | 190694305 | 1 |   |   | AC114778 | 189653482 | 1 | 11617 | 18242 | 9695 | 39554 |
| S/G/Y/R/B/O |
NT_006256 | AC068307 | 190747343 | 1 | chr4 | NT_006256 | AC107214 | 190937668 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_006256 | AC068307 | 190747343 | 1 | chr4 | NT_006256 | AC079257 | 189653482 | 1 | 19087 | 0 | 41228 | 60315 |
| S/G/Y/R/B/O |
NT_006256 | AC068307 | 190747343 | 1 |   |   | AC024441 | 189653482 | 1 | 95646 | 23820 | 1198 | 120664 |
| S/G/Y/R/B/O |
NT_006256 | AC107214 | 190937668 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_006256 | AC107214 | 190937668 | 1 | chr4 | NT_006256 | AC108477 | 190520365 | 1 | 21741 | 0 | 0 | 21741 |
| S/G/Y/R/B/O |
NT_006256 | AC107214 | 190937668 | 1 | chr4 | NT_006256 | AC112698 | 190225774 | 1 | 69431 | 0 | 0 | 69431 |
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