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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_029991 | AC027166 | 169705828 | 1 | chr6 | NT_029991 | AL607068 | 169713701 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AC027166 | 169705828 | 1 | chr6 | NT_029991 | AL355492 | 171601187 | 3 | 27337 | 13585 | 2726 | 43648 |
| S/G/Y/R/B/O |
NT_029991 | AC027166 | 169705828 | 1 | chr6 | NT_029991 | AL357832 | 171759809 | 3 | 17821 | 0 | 0 | 17821 |
| S/G/Y/R/B/O |
NT_029991 | AC027166 | 169705828 | 1 | chr6 | NT_029991 | AL590551 | 171653049 | 3 | 87331 | 7111 | 5003 | 99445 |
| S/G/Y/R/B/O |
NT_029991 | AC027166 | 169705828 | 1 |   |   | AC024402 | 166403665 | 1 | 17760 | 0 | 1272 | 19032 |
| S/G/Y/R/B/O |
NT_029991 | AC027166 | 169705828 | 1 |   |   | AC024677 | 166403665 | 1 | 50277 | 1521 | 0 | 51798 |
| S/G/Y/R/B/O |
NT_029991 | AL607068 | 169713701 | 3 | chr6 | NT_029991 | AL390955 | 169735266 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_029991 | AL390955 | 169735266 | 3 | chr6 | NT_029991 | AL117344 | 169790079 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL117344 | 169790079 | 3 | chr6 | NT_029991 | AL450328 | 169940315 | 3 | 0 | 0 | 100 | 100 |
| S/G/Y/R/B/O |
NT_029991 | AL450328 | 169940315 | 3 | chr6 | NT_029991 | AL133510 | 170059604 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL450328 | 169940315 | 3 |   |   | AC010932 | 169940315 | 1 | 47802 | 10460 | 3930 | 62192 |
| S/G/Y/R/B/O |
NT_029991 | AL133510 | 170059604 | 1 | chr6 | NT_029991 | AL391863 | 170182184 | 3 | 0 | 1995 | 0 | 1995 |
| S/G/Y/R/B/O |
NT_029991 | AL133510 | 170059604 | 1 |   |   | AC010932 | 169790079 | 1 | 84536 | 7009 | 22863 | 114408 |
| S/G/Y/R/B/O |
NT_029991 | AL391863 | 170182184 | 3 | chr6 | NT_029991 | AL035634 | 170302740 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_029991 | AL391863 | 170182184 | 3 |   |   | AC010932 | 170182184 | 1 | 11347 | 0 | 6263 | 17610 |
| S/G/Y/R/B/O |
NT_029991 | AL035634 | 170302740 | 3 | chr6 | NT_029991 | AL139330 | 170360955 | 3 | 0 | 0 | 100 | 100 |
| S/G/Y/R/B/O |
NT_029991 | AL139330 | 170360955 | 3 | chr6 | NT_029991 | AL135907 | 170521829 | 3 | 0 | 0 | 100 | 100 |
| S/G/Y/R/B/O |
NT_029991 | AL135907 | 170521829 | 3 | chr6 | NT_029991 | AL590703 | 170567356 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_029991 | AL590703 | 170567356 | 3 | chr6 | NT_029991 | AL133347 | 170619848 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_029991 | AL590703 | 170567356 | 3 |   |   | AC009814 | 170567356 | 1 | 16537 | 4254 | 4063 | 24854 |
| S/G/Y/R/B/O |
NT_029991 | AL133347 | 170619848 | 3 | chr6 | NT_029991 | AL360169 | 170718580 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL133347 | 170619848 | 3 |   |   | AC009814 | 170521829 | 1 | 53700 | 0 | 5993 | 59693 |
| S/G/Y/R/B/O |
NT_029991 | AL360169 | 170718580 | 3 | chr6 | NT_029991 | AL353800 | 170899115 | 3 | 0 | 0 | 100 | 100 |
| S/G/Y/R/B/O |
NT_029991 | AL360169 | 170718580 | 3 |   |   | AL161721 | 170567356 | 1 | 121800 | 0 | 0 | 121800 |
| S/G/Y/R/B/O |
NT_029991 | AL353800 | 170899115 | 3 | chr6 | NT_029991 | AL590242 | 170935465 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL590242 | 170935465 | 3 | chr6 | NT_029991 | AL591025 | 170948352 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_029991 | AL591025 | 170948352 | 3 | chr6 | NT_029991 | AL589931 | 171060829 | 2 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_029991 | AL589931 | 171060829 | 2 | chr6 | NT_029991 | AL627422 | 171274534 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_029991 | AL627422 | 171274534 | 3 | chr6 | NT_029991 | AL035530 | 171388400 | 3 | 0 | 1999 | 0 | 1999 |
| S/G/Y/R/B/O |
NT_029991 | AL035530 | 171388400 | 3 | chr6 | NT_029991 | AL356417 | 171494860 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL035530 | 171388400 | 3 |   |   | AC024402 | 171060829 | 1 | 38459 | 2761 | 1461 | 42681 |
| S/G/Y/R/B/O |
NT_029991 | AL356417 | 171494860 | 3 | chr6 | NT_029991 | AL355492 | 171601187 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL356417 | 171494860 | 3 |   |   | AC024402 | 171274534 | 1 | 89579 | 9543 | 2419 | 101541 |
| S/G/Y/R/B/O |
NT_029991 | AL356417 | 171494860 | 3 |   |   | AC024677 | 171274534 | 1 | 54570 | 1832 | 0 | 56402 |
| S/G/Y/R/B/O |
NT_029991 | AL355492 | 171601187 | 3 | chr6 | NT_029991 | AL590551 | 171653049 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL355492 | 171601187 | 3 | chr6 | NT_029991 | AC027166 | 169705828 | 1 | 27337 | 13585 | 2726 | 43648 |
| S/G/Y/R/B/O |
NT_029991 | AL355492 | 171601187 | 3 |   |   | AC024677 | 169705828 | 1 | 45402 | 0 | 0 | 45402 |
| S/G/Y/R/B/O |
NT_029991 | AL590551 | 171653049 | 3 | chr6 | NT_029991 | AL357832 | 171759809 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL590551 | 171653049 | 3 | chr6 | NT_029991 | AC027166 | 169705828 | 1 | 87331 | 7111 | 5003 | 99445 |
| S/G/Y/R/B/O |
NT_029991 | AL590551 | 171653049 | 3 |   |   | AC024677 | 169705828 | 1 | 55956 | 1521 | 1478 | 58955 |
| S/G/Y/R/B/O |
NT_029991 | AL357832 | 171759809 | 3 | chr6 | NT_029991 | AL078604 | 171907167 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL357832 | 171759809 | 3 | chr6 | NT_029991 | AC027166 | 169705828 | 1 | 17821 | 0 | 0 | 17821 |
| S/G/Y/R/B/O |
NT_029991 | AL357832 | 171759809 | 3 |   |   | AC018914 | 221601043 | 1 | 35463 | 0 | 0 | 35463 |
| S/G/Y/R/B/O |
NT_029991 | AL078604 | 171907167 | 3 | chr6 | NT_029991 | AL589725 | 172023755 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_029991 | AL078604 | 171907167 | 3 |   |   | AC018914 | 169705828 | 1 | 75933 | 0 | 34393 | 110326 |
| S/G/Y/R/B/O |
NT_029991 | AL589725 | 172023755 | 3 | chr6 | NT_029991 | AL135914 | 172052389 | 3 | 0 | 2000 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_029991 | AL135914 | 172052389 | 3 | chr6 | NT_029991 | AL139045 | 172216191 | 3 | 2000 | 0 | 0 | 2000 |
| S/G/Y/R/B/O |
NT_029991 | AL135914 | 172052389 | 3 |   |   | S77127 | 172023755 | 3 | 12799 | 0 | 0 | 12799 |
| S/G/Y/R/B/O |
NT_029991 | AL139045 | 172216191 | 3 | chr6 | NT_029991 | AL035691 | 172305290 | 3 | 0 | 0 | 100 | 100 |
| S/G/Y/R/B/O |
NT_029991 | AL035691 | 172305290 | 3 | chr6 | NT_029991 | AL353625 | 172435158 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL035691 | 172305290 | 3 |   |   | AF069333 | 172052389 | 3 | 44896 | 0 | 0 | 44896 |
| S/G/Y/R/B/O |
NT_029991 | AL035691 | 172305290 | 3 |   |   | AF348209 | 172052389 | 3 | 43963 | 0 | 0 | 43963 |
| S/G/Y/R/B/O |
NT_029991 | AL353625 | 172435158 | 3 | chr6 | NT_029991 | AL645733 | 172583308 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL353625 | 172435158 | 3 | chr6 | NT_029991 | AC022322 | 172936380 | 1 | 55730 | 2913 | 997 | 59640 |
| S/G/Y/R/B/O |
NT_029991 | AL353625 | 172435158 | 3 |   |   | AF069333 | 172936380 | 3 | 93550 | 0 | 0 | 93550 |
| S/G/Y/R/B/O |
NT_029991 | AL353625 | 172435158 | 3 |   |   | AF348209 | 172936380 | 3 | 93550 | 0 | 0 | 93550 |
| S/G/Y/R/B/O |
NT_029991 | AL353625 | 172435158 | 3 |   |   | AL645523 | 172936380 | 1 | 11329 | 14191 | 0 | 25520 |
| S/G/Y/R/B/O |
NT_029991 | AL645733 | 172583308 | 3 | chr6 | NT_029991 | AL162582 | 172618582 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL645733 | 172583308 | 3 | chr6 | NT_029991 | AC022322 | 172936380 | 1 | 37273 | 0 | 0 | 37273 |
| S/G/Y/R/B/O |
NT_029991 | AL645733 | 172583308 | 3 |   |   | AL645523 | 172940966 | 1 | 10152 | 2194 | 4989 | 17335 |
| S/G/Y/R/B/O |
NT_029991 | AL162582 | 172618582 | 3 | chr6 | NT_029991 | AL355506 | 172702368 | 3 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL162582 | 172618582 | 3 | chr6 | NT_029991 | AC022322 | 172936380 | 1 | 50980 | 0 | 23294 | 74274 |
| S/G/Y/R/B/O |
NT_029991 | AL162582 | 172618582 | 3 | chr6 | NT_029991 | AC024253 | 172940966 | 1 | 77837 | 0 | 2233 | 80070 |
| S/G/Y/R/B/O |
NT_029991 | AL162582 | 172618582 | 3 |   |   | AL645523 | 172940966 | 1 | 28440 | 0 | 3877 | 32317 |
| S/G/Y/R/B/O |
NT_029991 | AL355506 | 172702368 | 3 | chr6 | NT_029991 | AL591069 | 172783287 | 2 | 9327 | 0 | 0 | 9327 |
| S/G/Y/R/B/O |
NT_029991 | AL355506 | 172702368 | 3 | chr6 | NT_029991 | AC024253 | 172940966 | 1 | 62005 | 2217 | 0 | 64222 |
| S/G/Y/R/B/O |
NT_029991 | AL355506 | 172702368 | 3 |   |   | AC040893 | 172940966 | 1 | 33357 | 2779 | 4297 | 40433 |
| S/G/Y/R/B/O |
NT_029991 | AL355506 | 172702368 | 3 |   |   | AL591071 | 172783287 | 3 | 13401 | 0 | 0 | 13401 |
| S/G/Y/R/B/O |
NT_029991 | AL355506 | 172702368 | 3 |   |   | AL603885 | 172783287 | 3 | 67178 | 0 | 0 | 67178 |
| S/G/Y/R/B/O |
NT_029991 | AL355506 | 172702368 | 3 |   |   | AL645523 | 172783287 | 1 | 33066 | 14391 | 3250 | 50707 |
| S/G/Y/R/B/O |
NT_029991 | AL591069 | 172783287 | 2 | chr6 | NT_029991 | AC022322 | 172936380 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AL591069 | 172783287 | 2 | chr6 | NT_029991 | AC034136 | 172937725 | 1 | 90124 | 0 | 0 | 90124 |
| S/G/Y/R/B/O |
NT_029991 | AL591069 | 172783287 | 2 |   |   | AC040893 | 172937725 | 1 | 126290 | 0 | 7076 | 133366 |
| S/G/Y/R/B/O |
NT_029991 | AL591069 | 172783287 | 2 |   |   | AL645523 | 172702368 | 1 | 53592 | 24245 | 5104 | 82941 |
| S/G/Y/R/B/O |
NT_029991 | AC022322 | 172936380 | 1 | chr6 | NT_029991 | AC034136 | 172937725 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AC022322 | 172936380 | 1 | chr6 | NT_029991 | AC024253 | 172940966 | 1 | 74410 | 5525 | 2235 | 82170 |
| S/G/Y/R/B/O |
NT_029991 | AC022322 | 172936380 | 1 | chr6 | NT_029991 | AL162582 | 172618582 | 3 | 50980 | 0 | 23294 | 74274 |
| S/G/Y/R/B/O |
NT_029991 | AC022322 | 172936380 | 1 | chr6 | NT_029991 | AL353625 | 172435158 | 3 | 55730 | 2913 | 997 | 59640 |
| S/G/Y/R/B/O |
NT_029991 | AC022322 | 172936380 | 1 | chr6 | NT_029991 | AL645733 | 172583308 | 3 | 37273 | 0 | 0 | 37273 |
| S/G/Y/R/B/O |
NT_029991 | AC022322 | 172936380 | 1 |   |   | AL645523 | 172702368 | 1 | 49041 | 12785 | 8860 | 70686 |
| S/G/Y/R/B/O |
NT_029991 | AC034136 | 172937725 | 1 | chr6 | NT_029991 | AC024253 | 172940966 | 1 | 0 | 0 | 0 | 0 |
| S/G/Y/R/B/O |
NT_029991 | AC034136 | 172937725 | 1 | chr6 | NT_029991 | AL591069 | 172783287 | 2 | 90124 | 0 | 0 | 90124 |
| S/G/Y/R/B/O |
NT_029991 | AC034136 | 172937725 | 1 |   |   | AC040893 | 172583308 | 1 | 60291 | 0 | 0 | 60291 |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 |   |   |   |   |   |   |   |   |   |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 | chr6 | NT_029991 | AC022322 | 172936380 | 1 | 74410 | 5525 | 2235 | 82170 |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 | chr6 | NT_029991 | AL162582 | 172618582 | 3 | 77837 | 0 | 2233 | 80070 |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 | chr6 | NT_029991 | AL355506 | 172702368 | 3 | 62005 | 2217 | 0 | 64222 |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 |   |   | AC040893 | 172936380 | 1 | 29897 | 1964 | 0 | 31861 |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 |   |   | AL603885 | 172702368 | 3 | 53273 | 0 | 0 | 53273 |
| S/G/Y/R/B/O |
NT_029991 | AC024253 | 172940966 | 1 |   |   | AL645523 | 172702368 | 1 | 71066 | 8943 | 7732 | 87741 |
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