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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_027215 | AL390060 | 48468230 | 3 | chrX | NT_027215 | AL158055 | 48603608 | 3 | 0 | 0 | 100 | 100 |
| S/G/Y/R/B/O |
NT_027215 | AL390060 | 48468230 | 3 | chr5 | NT_006899 | AC084179 | 117616682 | 1 | 42605 | 7089 | 1067 | 50761 |
| S/G/Y/R/B/O |
NT_027215 | AL390060 | 48468230 | 3 | chrX | NT_033329 | AL662886 | 48221599 | 2 | 135033 | 0 | 0 | 135033 |
| S/G/Y/R/B/O |
NT_027215 | AL158055 | 48603608 | 3 | chrX | NT_027215 | AL391379 | 48788381 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_027215 | AL158055 | 48603608 | 3 | chrX | NT_027215 | AC027066 | 48957138 | 1 | 136586 | 6090 | 0 | 142676 |
| S/G/Y/R/B/O |
NT_027215 | AL391379 | 48788381 | 3 | chrX | NT_027215 | AC023152 | 48905081 | 1 | 0 | 0 | 96570 | 96570 |
| S/G/Y/R/B/O |
NT_027215 | AL391379 | 48788381 | 3 | chrX | NT_027215 | AC027066 | 48957138 | 1 | 16418 | 0 | 0 | 16418 |
| S/G/Y/R/B/O |
NT_027215 | AL391379 | 48788381 | 3 | chrX | NT_027215 | AC068486 | 48954211 | 1 | 74506 | 6067 | 27419 | 107992 |
| S/G/Y/R/B/O |
NT_027215 | AC023152 | 48905081 | 1 | chrX | NT_027215 | AC068486 | 48954211 | 1 | 96153 | 6068 | 27273 | 129494 |
| S/G/Y/R/B/O |
NT_027215 | AC023152 | 48905081 | 1 | chrX | NT_027215 | AC027066 | 48957138 | 1 | 45701 | 2247 | 0 | 47948 |
| S/G/Y/R/B/O |
NT_027215 | AC068486 | 48954211 | 1 | chrX | NT_027215 | AC027066 | 48957138 | 1 | 13860 | 0 | 0 | 13860 |
| S/G/Y/R/B/O |
NT_027215 | AC068486 | 48954211 | 1 | chrX | NT_027215 | AL391379 | 48788381 | 3 | 74506 | 6067 | 27419 | 107992 |
| S/G/Y/R/B/O |
NT_027215 | AC027066 | 48957138 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_027215 | AC027066 | 48957138 | 1 | chrX | NT_027215 | AC023152 | 48905081 | 1 | 45701 | 2247 | 0 | 47948 |
| S/G/Y/R/B/O |
NT_027215 | AC027066 | 48957138 | 1 | chrX | NT_027215 | AL158055 | 48603608 | 3 | 136586 | 6090 | 0 | 142676 |
| S/G/Y/R/B/O |
NT_027215 | AC027066 | 48957138 | 1 | chrX | NT_027215 | AL391379 | 48788381 | 3 | 16418 | 0 | 0 | 16418 |
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