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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_009307 | AC107948 | 17153015 | 2 | chr11 | NT_009307 | AC068848 | 17153831 | 1 | 18289 | 21073 | 17423 | 56785 |
| S/G/Y/R/B/O |
NT_009307 | AC107948 | 17153015 | 2 | chr11 | NT_009307 | AC020568 | 17887573 | 1 | 81920 | 0 | 17407 | 99327 |
| S/G/Y/R/B/O |
NT_009307 | AC107948 | 17153015 | 2 | chr11 | NT_009307 | AC084117 | 17195746 | 1 | 35576 | 2131 | 0 | 37707 |
| S/G/Y/R/B/O |
NT_009307 | AC107948 | 17153015 | 2 | chr11 | NT_009307 | AC090099 | 17887751 | 2 | 78246 | 0 | 0 | 78246 |
| S/G/Y/R/B/O |
NT_009307 | AC068848 | 17153831 | 1 | chr11 | NT_009307 | AC084117 | 17195746 | 1 | 3079 | 7842 | 9063 | 19984 |
| S/G/Y/R/B/O |
NT_009307 | AC068848 | 17153831 | 1 | chr11 | NT_009307 | AC090099 | 17887751 | 2 | 11316 | 21585 | 2046 | 34947 |
| S/G/Y/R/B/O |
NT_009307 | AC084117 | 17195746 | 1 | chr11 | NT_009307 | AC025620 | 17300084 | 1 | 6344 | 1902 | 2577 | 10823 |
| S/G/Y/R/B/O |
NT_009307 | AC084117 | 17195746 | 1 | chr11 | NT_009307 | AC027544 | 17326368 | 1 | 16677 | 0 | 0 | 16677 |
| S/G/Y/R/B/O |
NT_009307 | AC084117 | 17195746 | 1 | chr11 | NT_009307 | AC074292 | 17576028 | 1 | 47311 | 3903 | 23538 | 74752 |
| S/G/Y/R/B/O |
NT_009307 | AC084117 | 17195746 | 1 | chr11 | NT_009307 | AC107948 | 17153015 | 2 | 35576 | 2131 | 0 | 37707 |
| S/G/Y/R/B/O |
NT_009307 | AC025620 | 17300084 | 1 | chr11 | NT_009307 | AC027544 | 17326368 | 1 | 128843 | 4791 | 7670 | 141304 |
| S/G/Y/R/B/O |
NT_009307 | AC025620 | 17300084 | 1 | chr11 | NT_009307 | AC074292 | 17576028 | 1 | 54676 | 2683 | 8520 | 65879 |
| S/G/Y/R/B/O |
NT_009307 | AC025620 | 17300084 | 1 | chr11 | NT_009307 | AC112694 | 17493571 | 2 | 10268 | 0 | 0 | 10268 |
| S/G/Y/R/B/O |
NT_009307 | AC027544 | 17326368 | 1 | chr11 | NT_009307 | AC112694 | 17493571 | 2 | 52480 | 0 | 0 | 52480 |
| S/G/Y/R/B/O |
NT_009307 | AC027544 | 17326368 | 1 | chr11 | NT_009307 | AC016750 | 17520671 | 1 | 49000 | 2455 | 0 | 51455 |
| S/G/Y/R/B/O |
NT_009307 | AC027544 | 17326368 | 1 | chr11 | NT_009307 | AC074292 | 17576028 | 1 | 49501 | 2674 | 12534 | 64709 |
| S/G/Y/R/B/O |
NT_009307 | AC027544 | 17326368 | 1 | chr11 | NT_009307 | AC084117 | 17195746 | 1 | 16677 | 0 | 0 | 16677 |
| S/G/Y/R/B/O |
NT_009307 | AC112694 | 17493571 | 2 | chr11 | NT_009307 | AC016750 | 17520671 | 1 | 124751 | 15543 | 34034 | 174328 |
| S/G/Y/R/B/O |
NT_009307 | AC112694 | 17493571 | 2 | chr11 | NT_009307 | AC025620 | 17300084 | 1 | 10268 | 0 | 0 | 10268 |
| S/G/Y/R/B/O |
NT_009307 | AC112694 | 17493571 | 2 | chr11 | NT_009307 | AC103974 | 17521342 | 2 | 54750 | 10075 | 1237 | 66062 |
| S/G/Y/R/B/O |
NT_009307 | AC016750 | 17520671 | 1 | chr11 | NT_009307 | AC103974 | 17521342 | 2 | 40239 | 1916 | 3301 | 45456 |
| S/G/Y/R/B/O |
NT_009307 | AC016750 | 17520671 | 1 | chr11 | NT_009307 | AC027544 | 17326368 | 1 | 49000 | 2455 | 0 | 51455 |
| S/G/Y/R/B/O |
NT_009307 | AC103974 | 17521342 | 2 | chr11 | NT_009307 | AC108007 | 17570252 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC103974 | 17521342 | 2 | chr11 | NT_009307 | AC023078 | 17648927 | 2 | 18781 | 0 | 0 | 18781 |
| S/G/Y/R/B/O |
NT_009307 | AC103974 | 17521342 | 2 | chr11 | NT_009307 | AC112694 | 17493571 | 2 | 54750 | 10075 | 1237 | 66062 |
| S/G/Y/R/B/O |
NT_009307 | AC108007 | 17570252 | 2 | chr11 | NT_009307 | AC074292 | 17576028 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC108007 | 17570252 | 2 | chr11 | NT_009307 | AC005728 | 18056817 | 3 | 24422 | 0 | 0 | 24422 |
| S/G/Y/R/B/O |
NT_009307 | AC108007 | 17570252 | 2 | chr5 | NT_023315 | AC010342 | 24519035 | 3 | 16414 | 9054 | 1361 | 26829 |
| S/G/Y/R/B/O |
NT_009307 | AC108007 | 17570252 | 2 | chr11 | NT_009307 | AC020568 | 17887573 | 1 | 11710 | 0 | 538 | 12248 |
| S/G/Y/R/B/O |
NT_009307 | AC108007 | 17570252 | 2 | chr11 | NT_009307 | AC055860 | 17990949 | 3 | 89903 | 0 | 0 | 89903 |
| S/G/Y/R/B/O |
NT_009307 | AC108007 | 17570252 | 2 | chr11 | NT_009307 | AC090099 | 17887751 | 2 | 68243 | 0 | 0 | 68243 |
| S/G/Y/R/B/O |
NT_009307 | AC074292 | 17576028 | 1 | chr11 | NT_009307 | AC023078 | 17648927 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC074292 | 17576028 | 1 | chr11 | NT_009307 | AC025620 | 17300084 | 1 | 54676 | 2683 | 8520 | 65879 |
| S/G/Y/R/B/O |
NT_009307 | AC074292 | 17576028 | 1 | chr11 | NT_009307 | AC027544 | 17326368 | 1 | 49501 | 2674 | 12534 | 64709 |
| S/G/Y/R/B/O |
NT_009307 | AC074292 | 17576028 | 1 | chr11 | NT_009307 | AC084117 | 17195746 | 1 | 47311 | 3903 | 23538 | 74752 |
| S/G/Y/R/B/O |
NT_009307 | AC023078 | 17648927 | 2 | chr11 | NT_009307 | AC020568 | 17887573 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC023078 | 17648927 | 2 | chr11 | NT_009307 | AC103974 | 17521342 | 2 | 18781 | 0 | 0 | 18781 |
| S/G/Y/R/B/O |
NT_009307 | AC020568 | 17887573 | 1 | chr11 | NT_009307 | AC090099 | 17887751 | 2 | 76652 | 4450 | 25886 | 106988 |
| S/G/Y/R/B/O |
NT_009307 | AC020568 | 17887573 | 1 | chr11 | NT_009307 | AC107948 | 17153015 | 2 | 81920 | 0 | 17407 | 99327 |
| S/G/Y/R/B/O |
NT_009307 | AC020568 | 17887573 | 1 | chr11 | NT_009307 | AC108007 | 17570252 | 2 | 11710 | 0 | 538 | 12248 |
| S/G/Y/R/B/O |
NT_009307 | AC090099 | 17887751 | 2 | chr11 | NT_009307 | AC055860 | 17990949 | 3 | 41450 | 0 | 0 | 41450 |
| S/G/Y/R/B/O |
NT_009307 | AC090099 | 17887751 | 2 | chr11 | NT_009307 | AC068848 | 17153831 | 1 | 11316 | 21585 | 2046 | 34947 |
| S/G/Y/R/B/O |
NT_009307 | AC090099 | 17887751 | 2 | chr11 | NT_009307 | AC107948 | 17153015 | 2 | 78246 | 0 | 0 | 78246 |
| S/G/Y/R/B/O |
NT_009307 | AC090099 | 17887751 | 2 | chr11 | NT_009307 | AC108007 | 17570252 | 2 | 68243 | 0 | 0 | 68243 |
| S/G/Y/R/B/O |
NT_009307 | AC055860 | 17990949 | 3 | chr11 | NT_009307 | AC005728 | 18056817 | 3 | 94440 | 0 | 0 | 94440 |
| S/G/Y/R/B/O |
NT_009307 | AC055860 | 17990949 | 3 | chr11 | NT_009307 | AC108007 | 17570252 | 2 | 89903 | 0 | 0 | 89903 |
| S/G/Y/R/B/O |
NT_009307 | AC055860 | 17990949 | 3 |   |   | AC068212 | 17887573 | 1 | 55214 | 0 | 23224 | 78438 |
| S/G/Y/R/B/O |
NT_009307 | AC005728 | 18056817 | 3 | chr11 | NT_009307 | AC004582 | 18152932 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC005728 | 18056817 | 3 | chr11 | NT_009307 | AC108007 | 17570252 | 2 | 24422 | 0 | 0 | 24422 |
| S/G/Y/R/B/O |
NT_009307 | AC005728 | 18056817 | 3 |   |   | AC068212 | 17990949 | 1 | 119328 | 0 | 0 | 119328 |
| S/G/Y/R/B/O |
NT_009307 | AC004582 | 18152932 | 3 | chr11 | NT_009307 | AC004736 | 18321293 | 3 | 8776 | 0 | 0 | 8776 |
| S/G/Y/R/B/O |
NT_009307 | AC004582 | 18152932 | 3 |   |   | AC068212 | 18321293 | 1 | 74495 | 0 | 20065 | 94560 |
| S/G/Y/R/B/O |
NT_009307 | AC004736 | 18321293 | 3 | chr11 | NT_009307 | AC005151 | 18437251 | 1 | 0 | 0 | 11228 | 11228 |
| S/G/Y/R/B/O |
NT_009307 | AC004736 | 18321293 | 3 |   |   | AF027148 | 18437251 | 3 | 12786 | 0 | 0 | 12786 |
| S/G/Y/R/B/O |
NT_009307 | AC005151 | 18437251 | 1 | chr11 | NT_009307 | AC005137 | 18442488 | 3 | 49060 | 0 | 0 | 49060 |
| S/G/Y/R/B/O |
NT_009307 | AC005151 | 18437251 | 1 |   |   | AF027148 | 18442488 | 3 | 12786 | 0 | 0 | 12786 |
| S/G/Y/R/B/O |
NT_009307 | AC005137 | 18442488 | 3 | chr11 | NT_009307 | AC003969 | 18601467 | 3 | 2210 | 0 | 0 | 2210 |
| S/G/Y/R/B/O |
NT_009307 | AC003969 | 18601467 | 3 | chr11 | NT_009307 | AC003692 | 18718405 | 3 | 24252 | 0 | 0 | 24252 |
| S/G/Y/R/B/O |
NT_009307 | AC003692 | 18718405 | 3 | chr11 | NT_009307 | AC027026 | 18873499 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC027026 | 18873499 | 2 | chr11 | NT_009307 | AC009652 | 18954069 | 3 | 73055 | 0 | 0 | 73055 |
| S/G/Y/R/B/O |
NT_009307 | AC009652 | 18954069 | 3 | chr11 | NT_009307 | AC026947 | 19153372 | 1 | 93868 | 4277 | 0 | 98145 |
| S/G/Y/R/B/O |
NT_009307 | AC009652 | 18954069 | 3 | chr11 | NT_009307 | AC113193 | 19164407 | 2 | 33371 | 0 | 0 | 33371 |
| S/G/Y/R/B/O |
NT_009307 | AC026947 | 19153372 | 1 | chr11 | NT_009307 | AC113193 | 19164407 | 2 | 78850 | 1979 | 1017 | 81846 |
| S/G/Y/R/B/O |
NT_009307 | AC026947 | 19153372 | 1 | chr11 | NT_009307 | AC087616 | 19183265 | 3 | 17899 | 0 | 0 | 17899 |
| S/G/Y/R/B/O |
NT_009307 | AC113193 | 19164407 | 2 | chr11 | NT_009307 | AC087616 | 19183265 | 3 | 145557 | 0 | 0 | 145557 |
| S/G/Y/R/B/O |
NT_009307 | AC113193 | 19164407 | 2 | chr11 | NT_009307 | AC009652 | 18954069 | 3 | 33371 | 0 | 0 | 33371 |
| S/G/Y/R/B/O |
NT_009307 | AC113193 | 19164407 | 2 | chr11 | NT_009307 | AC023950 | 19361204 | 3 | 44066 | 0 | 0 | 44066 |
| S/G/Y/R/B/O |
NT_009307 | AC113193 | 19164407 | 2 |   |   | AC079014 | 19153372 | 1 | 95475 | 9313 | 2683 | 107471 |
| S/G/Y/R/B/O |
NT_009307 | AC087616 | 19183265 | 3 | chr11 | NT_009307 | AC023950 | 19361204 | 3 | 81947 | 0 | 0 | 81947 |
| S/G/Y/R/B/O |
NT_009307 | AC087616 | 19183265 | 3 | chr11 | NT_009307 | AC026947 | 19153372 | 1 | 17899 | 0 | 0 | 17899 |
| S/G/Y/R/B/O |
NT_009307 | AC087616 | 19183265 | 3 |   |   | AC079014 | 19153372 | 1 | 142477 | 18819 | 2683 | 163979 |
| S/G/Y/R/B/O |
NT_009307 | AC023950 | 19361204 | 3 | chr11 | NT_009307 | AC009549 | 19490721 | 2 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC023950 | 19361204 | 3 | chr11 | NT_009307 | AC113193 | 19164407 | 2 | 44066 | 0 | 0 | 44066 |
| S/G/Y/R/B/O |
NT_009307 | AC023950 | 19361204 | 3 |   |   | AC079014 | 19164407 | 1 | 77527 | 13834 | 0 | 91361 |
| S/G/Y/R/B/O |
NT_009307 | AC009549 | 19490721 | 2 | chr11 | NT_009307 | AC079361 | 19667053 | 3 | 40943 | 0 | 0 | 40943 |
| S/G/Y/R/B/O |
NT_009307 | AC009549 | 19490721 | 2 |   |   | AC015805 | 87062852 | 3 | 13788 | 0 | 0 | 13788 |
| S/G/Y/R/B/O |
NT_009307 | AC009549 | 19490721 | 2 |   |   | AC090662 | 19667053 | 2 | 40925 | 0 | 0 | 40925 |
| S/G/Y/R/B/O |
NT_009307 | AC079361 | 19667053 | 3 | chr11 | NT_009307 | AC111163 | 19803824 | 2 | 30167 | 0 | 85110 | 115277 |
| S/G/Y/R/B/O |
NT_009307 | AC079361 | 19667053 | 3 |   |   | AC090662 | 19490721 | 2 | 177571 | 0 | 0 | 177571 |
| S/G/Y/R/B/O |
NT_009307 | AC111163 | 19803824 | 2 | chr11 | NT_009307 | AC015684 | 19820356 | 1 | 27861 | 0 | 0 | 27861 |
| S/G/Y/R/B/O |
NT_009307 | AC111163 | 19803824 | 2 | chr11 | NT_009307 | AC011227 | 20241024 | 1 | 59935 | 0 | 0 | 59935 |
| S/G/Y/R/B/O |
NT_009307 | AC111163 | 19803824 | 2 |   |   | AC090662 | 19667053 | 2 | 30153 | 0 | 84684 | 114837 |
| S/G/Y/R/B/O |
NT_009307 | AC015684 | 19820356 | 1 | chr11 | NT_009307 | AC068860 | 20004295 | 3 | 34599 | 0 | 0 | 34599 |
| S/G/Y/R/B/O |
NT_009307 | AC015684 | 19820356 | 1 | chr11 | NT_009307 | AC011227 | 20241024 | 1 | 158607 | 0 | 0 | 158607 |
| S/G/Y/R/B/O |
NT_009307 | AC068860 | 20004295 | 3 | chr11 | NT_009307 | AC025972 | 20079662 | 2 | 4694 | 0 | 0 | 4694 |
| S/G/Y/R/B/O |
NT_009307 | AC025972 | 20079662 | 2 | chr11 | NT_009307 | AC011227 | 20241024 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_009307 | AC011227 | 20241024 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_009307 | AC011227 | 20241024 | 1 | chr11 | NT_009307 | AC015684 | 19820356 | 1 | 158607 | 0 | 0 | 158607 |
| S/G/Y/R/B/O |
NT_009307 | AC011227 | 20241024 | 1 | chr11 | NT_009307 | AC111163 | 19803824 | 2 | 59935 | 0 | 0 | 59935 |
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