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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_009551 | AC025161 | 78042416 | 1 | chr12 | NT_009551 | AC017057 | 78044879 | 1 | 61709 | 0 | 55315 | 117024 |
| S/G/Y/R/B/O |
NT_009551 | AC025161 | 78042416 | 1 | chr12 | NT_009551 | AC021804 | 78252024 | 1 | 56213 | 0 | 0 | 56213 |
| S/G/Y/R/B/O |
NT_009551 | AC025161 | 78042416 | 1 | chr12 | NT_009551 | AC026119 | 78299321 | 1 | 23436 | 0 | 0 | 23436 |
| S/G/Y/R/B/O |
NT_009551 | AC025161 | 78042416 | 1 | chr12 | NT_009551 | AC079030 | 78304625 | 3 | 10709 | 0 | 0 | 10709 |
| S/G/Y/R/B/O |
NT_009551 | AC025161 | 78042416 | 1 |   |   | AC025567 | 78252024 | 1 | 11661 | 2360 | 28270 | 42291 |
| S/G/Y/R/B/O |
NT_009551 | AC017057 | 78044879 | 1 | chr12 | NT_009551 | AC073552 | 78048052 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC017057 | 78044879 | 1 | chr12 | NT_009551 | AC021804 | 78252024 | 1 | 115210 | 0 | 0 | 115210 |
| S/G/Y/R/B/O |
NT_009551 | AC017057 | 78044879 | 1 | chr12 | NT_009551 | AC026119 | 78299321 | 1 | 45314 | 2618 | 12073 | 60005 |
| S/G/Y/R/B/O |
NT_009551 | AC017057 | 78044879 | 1 | chr12 | NT_009551 | AC079030 | 78304625 | 3 | 58485 | 1710 | 0 | 60195 |
| S/G/Y/R/B/O |
NT_009551 | AC017057 | 78044879 | 1 |   |   | AC025567 | 78042416 | 1 | 37323 | 0 | 0 | 37323 |
| S/G/Y/R/B/O |
NT_009551 | AC073552 | 78048052 | 1 | chr12 | NT_009551 | AC010951 | 78105610 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC073552 | 78048052 | 1 | chr12 | NT_009551 | AC078822 | 79150115 | 3 | 20977 | 0 | 10605 | 31582 |
| S/G/Y/R/B/O |
NT_009551 | AC073552 | 78048052 | 1 |   |   | AC068780 | 79316940 | 1 | 100927 | 1892 | 10011 | 112830 |
| S/G/Y/R/B/O |
NT_009551 | AC010951 | 78105610 | 1 | chr12 | NT_009551 | AC018372 | 78118196 | 1 | 108717 | 5099 | 2683 | 116499 |
| S/G/Y/R/B/O |
NT_009551 | AC010951 | 78105610 | 1 | chr12 | NT_009551 | AC041032 | 79577874 | 1 | 58022 | 0 | 1409 | 59431 |
| S/G/Y/R/B/O |
NT_009551 | AC010951 | 78105610 | 1 | chr12 | NT_009551 | AC073044 | 79595220 | 1 | 35214 | 9297 | 11995 | 56506 |
| S/G/Y/R/B/O |
NT_009551 | AC010951 | 78105610 | 1 |   |   | AC068994 | 79577874 | 1 | 28703 | 1110 | 0 | 29813 |
| S/G/Y/R/B/O |
NT_009551 | AC018372 | 78118196 | 1 | chr12 | NT_009551 | AC021804 | 78252024 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC018372 | 78118196 | 1 | chr12 | NT_009551 | AC041032 | 79577874 | 1 | 68953 | 0 | 1408 | 70361 |
| S/G/Y/R/B/O |
NT_009551 | AC018372 | 78118196 | 1 | chr12 | NT_009551 | AC073044 | 79595220 | 1 | 35201 | 7071 | 12012 | 54284 |
| S/G/Y/R/B/O |
NT_009551 | AC018372 | 78118196 | 1 |   |   | AC068994 | 79577874 | 1 | 31826 | 1110 | 0 | 32936 |
| S/G/Y/R/B/O |
NT_009551 | AC021804 | 78252024 | 1 | chr12 | NT_009551 | AC026119 | 78299321 | 1 | 15263 | 1362 | 2612 | 19237 |
| S/G/Y/R/B/O |
NT_009551 | AC021804 | 78252024 | 1 | chr12 | NT_009551 | AC017057 | 78044879 | 1 | 115210 | 0 | 0 | 115210 |
| S/G/Y/R/B/O |
NT_009551 | AC021804 | 78252024 | 1 | chr12 | NT_009551 | AC025161 | 78042416 | 1 | 56213 | 0 | 0 | 56213 |
| S/G/Y/R/B/O |
NT_009551 | AC021804 | 78252024 | 1 | chr12 | NT_009551 | AC079030 | 78304625 | 3 | 51889 | 0 | 0 | 51889 |
| S/G/Y/R/B/O |
NT_009551 | AC026119 | 78299321 | 1 | chr12 | NT_009551 | AC079030 | 78304625 | 3 | 74910 | 8087 | 12231 | 95228 |
| S/G/Y/R/B/O |
NT_009551 | AC026119 | 78299321 | 1 | chr12 | NT_009551 | AC017057 | 78044879 | 1 | 45314 | 2618 | 12073 | 60005 |
| S/G/Y/R/B/O |
NT_009551 | AC026119 | 78299321 | 1 | chr12 | NT_009551 | AC025161 | 78042416 | 1 | 23436 | 0 | 0 | 23436 |
| S/G/Y/R/B/O |
NT_009551 | AC026119 | 78299321 | 1 | chr12 | NT_009551 | AC068797 | 78403866 | 3 | 21989 | 0 | 8412 | 30401 |
| S/G/Y/R/B/O |
NT_009551 | AC079030 | 78304625 | 3 | chr12 | NT_009551 | AC068797 | 78403866 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC079030 | 78304625 | 3 | chr12 | NT_009551 | AC017057 | 78044879 | 1 | 58485 | 1710 | 0 | 60195 |
| S/G/Y/R/B/O |
NT_009551 | AC079030 | 78304625 | 3 | chr12 | NT_009551 | AC021804 | 78252024 | 1 | 51889 | 0 | 0 | 51889 |
| S/G/Y/R/B/O |
NT_009551 | AC079030 | 78304625 | 3 | chr12 | NT_009551 | AC025161 | 78042416 | 1 | 10709 | 0 | 0 | 10709 |
| S/G/Y/R/B/O |
NT_009551 | AC068797 | 78403866 | 3 | chr12 | NT_009551 | AC068771 | 78538122 | 1 | 28056 | 2338 | 0 | 30394 |
| S/G/Y/R/B/O |
NT_009551 | AC068797 | 78403866 | 3 | chr12 | NT_009551 | AC026119 | 78299321 | 1 | 21989 | 0 | 8412 | 30401 |
| S/G/Y/R/B/O |
NT_009551 | AC068771 | 78538122 | 1 | chr12 | NT_009551 | AC073591 | 78661013 | 3 | 6827 | 0 | 0 | 6827 |
| S/G/Y/R/B/O |
NT_009551 | AC068771 | 78538122 | 1 | chr3 | NT_022509 | AC007953 | 184163202 | 1 | 89052 | 5124 | 16963 | 111139 |
| S/G/Y/R/B/O |
NT_009551 | AC068771 | 78538122 | 1 | chr3 | NT_022509 | AC012031 | 184120025 | 1 | 11028 | 8003 | 7681 | 26712 |
| S/G/Y/R/B/O |
NT_009551 | AC068771 | 78538122 | 1 | chr3 | NT_022509 | AC103549 | 184244497 | 3 | 71722 | 5010 | 7387 | 84119 |
| S/G/Y/R/B/O |
NT_009551 | AC073591 | 78661013 | 3 | chr12 | NT_009551 | AC068800 | 78750787 | 3 | 18223 | 0 | 0 | 18223 |
| S/G/Y/R/B/O |
NT_009551 | AC068800 | 78750787 | 3 | chr12 | NT_009551 | AC073528 | 78839970 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC068800 | 78750787 | 3 |   |   | AC024628 | 78750787 | 1 | 36077 | 2210 | 1873 | 40160 |
| S/G/Y/R/B/O |
NT_009551 | AC073528 | 78839970 | 3 | chr12 | NT_009551 | AC073907 | 79004998 | 3 | 67126 | 0 | 0 | 67126 |
| S/G/Y/R/B/O |
NT_009551 | AC073528 | 78839970 | 3 |   |   | AC024628 | 78661013 | 1 | 116768 | 13441 | 4514 | 134723 |
| S/G/Y/R/B/O |
NT_009551 | AC073528 | 78839970 | 3 |   |   | AC073652 | 78661013 | 1 | 167011 | 0 | 0 | 167011 |
| S/G/Y/R/B/O |
NT_009551 | AC073907 | 79004998 | 3 | chr12 | NT_009551 | AC078822 | 79150115 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC073907 | 79004998 | 3 |   |   | AC024628 | 79004998 | 1 | 27567 | 1632 | 0 | 29199 |
| S/G/Y/R/B/O |
NT_009551 | AC073907 | 79004998 | 3 |   |   | AC068780 | 79004998 | 1 | 70978 | 0 | 0 | 70978 |
| S/G/Y/R/B/O |
NT_009551 | AC073907 | 79004998 | 3 |   |   | AC073652 | 78048052 | 1 | 67098 | 0 | 0 | 67098 |
| S/G/Y/R/B/O |
NT_009551 | AC078822 | 79150115 | 3 | chr12 | NT_009551 | AC022268 | 79316940 | 3 | 156467 | 0 | 0 | 156467 |
| S/G/Y/R/B/O |
NT_009551 | AC078822 | 79150115 | 3 | chr12 | NT_009551 | AC073552 | 78048052 | 1 | 20977 | 0 | 10605 | 31582 |
| S/G/Y/R/B/O |
NT_009551 | AC078822 | 79150115 | 3 | chr3 | NT_033043 | AC110996 | 88048521 | 1 | 41591 | 6378 | 16706 | 64675 |
| S/G/Y/R/B/O |
NT_009551 | AC078822 | 79150115 | 3 |   |   | AC090020 | 78048052 | 1 | 43759 | 0 | 35819 | 79578 |
| S/G/Y/R/B/O |
NT_009551 | AC078822 | 79150115 | 3 |   |   | AC098564 | 78048052 | 1 | 79659 | 0 | 25341 | 105000 |
| S/G/Y/R/B/O |
NT_009551 | AC022268 | 79316940 | 3 | chr12 | NT_009551 | AC073571 | 79322057 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC022268 | 79316940 | 3 | chr3 | NT_033043 | AC110996 | 88048521 | 1 | 46673 | 16976 | 16332 | 79981 |
| S/G/Y/R/B/O |
NT_009551 | AC022268 | 79316940 | 3 |   |   | AC090020 | 79150115 | 1 | 53756 | 0 | 25647 | 79403 |
| S/G/Y/R/B/O |
NT_009551 | AC022268 | 79316940 | 3 |   |   | AC098564 | 79150115 | 1 | 79494 | 0 | 25277 | 104771 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 | chr12 | NT_009551 | AC073608 | 79466288 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 | chr12 | NT_009551 | AC017064 | 79575567 | 1 | 59695 | 4673 | 44988 | 109356 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 | chr3 | NT_033043 | AC110996 | 88048521 | 1 | 17691 | 10407 | 5554 | 33652 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 |   |   | AC021380 | 79575567 | 1 | 73973 | 0 | 2870 | 76843 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 |   |   | AC090020 | 79575567 | 1 | 65677 | 0 | 0 | 65677 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 |   |   | AC098564 | 79575567 | 1 | 65671 | 0 | 0 | 65671 |
| S/G/Y/R/B/O |
NT_009551 | AC073571 | 79322057 | 3 |   |   | AX034587 | 88048521 | 3 | 72119 | 0 | 0 | 72119 |
| S/G/Y/R/B/O |
NT_009551 | AC073608 | 79466288 | 3 | chr12 | NT_009551 | AC017064 | 79575567 | 1 | 49614 | 0 | 2623 | 52237 |
| S/G/Y/R/B/O |
NT_009551 | AC073608 | 79466288 | 3 | chr12 | NT_009551 | AC041032 | 79577874 | 1 | 44113 | 0 | 2681 | 46794 |
| S/G/Y/R/B/O |
NT_009551 | AC073608 | 79466288 | 3 | chr12 | NT_009551 | AC073044 | 79595220 | 1 | 41418 | 4897 | 1054 | 47369 |
| S/G/Y/R/B/O |
NT_009551 | AC073608 | 79466288 | 3 |   |   | AC021380 | 79575567 | 1 | 48474 | 0 | 2338 | 50812 |
| S/G/Y/R/B/O |
NT_009551 | AC073608 | 79466288 | 3 |   |   | AX034587 | 79595220 | 3 | 11098 | 0 | 0 | 11098 |
| S/G/Y/R/B/O |
NT_009551 | AC017064 | 79575567 | 1 | chr12 | NT_009551 | AC041032 | 79577874 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009551 | AC017064 | 79575567 | 1 | chr12 | NT_009551 | AC073571 | 79322057 | 3 | 59695 | 4673 | 44988 | 109356 |
| S/G/Y/R/B/O |
NT_009551 | AC017064 | 79575567 | 1 |   |   | AC021380 | 79595220 | 1 | 37986 | 4673 | 31544 | 74203 |
| S/G/Y/R/B/O |
NT_009551 | AC017064 | 79575567 | 1 |   |   | AC090020 | 79466288 | 1 | 16879 | 2143 | 0 | 19022 |
| S/G/Y/R/B/O |
NT_009551 | AC017064 | 79575567 | 1 |   |   | AC098564 | 79466288 | 1 | 16879 | 2143 | 0 | 19022 |
| S/G/Y/R/B/O |
NT_009551 | AC017064 | 79575567 | 1 |   |   | AX034587 | 88048521 | 3 | 18665 | 2527 | 48882 | 70074 |
| S/G/Y/R/B/O |
NT_009551 | AC041032 | 79577874 | 1 | chr12 | NT_009551 | AC073044 | 79595220 | 1 | 78617 | 16648 | 8367 | 103632 |
| S/G/Y/R/B/O |
NT_009551 | AC041032 | 79577874 | 1 | chr12 | NT_009551 | AC010951 | 78105610 | 1 | 58022 | 0 | 1409 | 59431 |
| S/G/Y/R/B/O |
NT_009551 | AC041032 | 79577874 | 1 | chr12 | NT_009551 | AC018372 | 78118196 | 1 | 68953 | 0 | 1408 | 70361 |
| S/G/Y/R/B/O |
NT_009551 | AC041032 | 79577874 | 1 | chr12 | NT_009551 | AC073608 | 79466288 | 3 | 44113 | 0 | 2681 | 46794 |
| S/G/Y/R/B/O |
NT_009551 | AC073044 | 79595220 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_009551 | AC073044 | 79595220 | 1 | chr12 | NT_009551 | AC010951 | 78105610 | 1 | 35214 | 9297 | 11995 | 56506 |
| S/G/Y/R/B/O |
NT_009551 | AC073044 | 79595220 | 1 | chr12 | NT_009551 | AC018372 | 78118196 | 1 | 35201 | 7071 | 12012 | 54284 |
| S/G/Y/R/B/O |
NT_009551 | AC073044 | 79595220 | 1 | chr12 | NT_009551 | AC073608 | 79466288 | 3 | 41418 | 4897 | 1054 | 47369 |
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