Genetic Analysis: Enhancing Crop Traits Through Science

1. Lasseter X ICC3996LG1 SNP_40002151 SNP_40002152 0.0 SNP_40002107 SNP_40002108 0.3 SNP_40001407 SNP_40001511 0.6 SNP_40002085 1.3 • Lasseter X ICC3996LG5 SNP_40000416 2.3 SNP_40000425 4.4 S95362 X Howzat LG1.1/5 SNP_40001247 6.2 SNP_40002216 SNP_40002396 6.9 SNP_40002151 SNP_40002107 TA39 0.0 0.0 SNP_40001996 7.6 SNP_40002411 SNP_40002152 TA11 1.0 SNP_40000872 SNP_40000547 8.6 SNP_40001407 SNP_40001511 TA116 TA42 1.4 0.4 SNP_40002453 SNP_40002455 10.4 SNP_40001778 SNP_40001408 SNP_40002426 2.1 SNP_40001704 SNP_40001621 10.7 SNP_40001248 2.1 CaSTMS7 TA71 3.5 SNP_40001571 SNP_40001575 12.4 SNP_40000425 3.0 LG1.2 SNP_40001478 9.9 SNP_40001134 18.0 SNP_40001704 9.2 SNP_40001477 12.0 SNP_40001131 SNP_40001441 19.4 SNP_40001571 SNP_40001575 11.0 SNP_40002204 SNP_40002501 12.7 SNP_40000918 0.0 SNP_40002574 19.7 SNP_40002607 SNP_40002330 SNP_40001217 SNP_40002305 13.0 20.3 SNP_40000515 SNP_40002490 20.0 SNP_40002574 SNP_40001838 SNP_40001839 SNP_40001668 14.0 22.1 SNP_40001311 SNP_40001277 20.3 SNP_40001441 SNP_40001840 SNP_40001841 22.1 SNP_40000705 SNP_40002092 SNP_40001830 20.6 SNP_40000515 SNP_40002490 SNP_40001339 CaSTMS13 14.7 SNP_40002093 SNP_40002602 23.0 22.6 SNP_40002133 20.9 SNP_40001131 SNP_40001392 SNP_40001734 SNP_40001832 15.0 SNP_40001417 22.0 SNP_40001134 SNP_40001508 23.4 23.0 SNP_40001545 16.0 SNP_40000789 23.7 SNP_40001311 SNP_40000878 SNP_40001986 SNP_40001874 24.3 SNP_40001489 SNP_40001093 24.0 SNP_40002572 SNP_40001277 16.3 SNP_40001546 SNP_40001987 SNP_40002655 CaSTMS21 24.3 SNP_40002133 SNP_40000686 SNP_40000766 24.7 23.2 SNP_40001615 28.1 SNP_40002136 SNP_40001417 SNP_40001218 27.2 SNP_40002314 SNP_40001494 28.8 SNP_40001093 SNP_40002655 SNP_40000221 SNP_40001076 26.0 SNP_40000712 29.5 SNP_40000891 SNP_40000789 31.3 SNP_40000372 SNP_40001078 SNP_40002297 32.7 CaSTMS21 26.4 NCPGR196 37.5 SNP_40002091 41.4 SNP_40001715 34.0 SNP_40002156 40.8 SNP_40001264 42.8 SNP_40000666 PBA_CA_00224 54.5 SNP_40001935 SNP_40000523 SNP_40001265 SNP_40000395 43.5 SNP_40002269 41.1 55.8 SNP_40001703 SNP_40001130 SNP_40001062 44.2 SNP_40001627 65.2 SNP_40002190 41.8 SNP_40001565 46.0 SNP_40002472 66.1 SNP_40001965 54.5 SNP_40002388 SNP_40000717 47.0 SNP_40002515 67.0 SNP_40002031 67.8 SNP_40000566 49.1 SNP_40001096 SNP_40001623 SNP_40001005 SNP_40001006 79.6 67.9 SNP_40000913 50.2 SNP_40001626 SNP_40001097 SNP_40000385 SNP_40000450 50.8 SNP_40000945 68.8 SNP_40000567 SNP_40000569 51.1 SNP_40000489 75.1 SNP_40001682 51.5 SNP_40001332 81.4 SNP_40001159 SNP_40002472 51.8 TA127 83.8 SNP_40001911 SNP_40001913 52.8 TA116 84.4 SNP_40000564 53.5 SNP_40001721 TA30 84.9 SNP_40000729 SNP_40001912 54.2 TA8 TA42 SNP_40000912 SNP_40001784 54.5 SNP_40001477 87.2 SNP_40002312 SNP_40002509 54.8 TA39 94.8 SNP_40000666 PBA_CA_00224 55.5 SNP_40002329 110.1 SNP_40002077 59.7 SNP_40002442 134.8 SNP_40000489 SNP_40000960 70.3 SNP_40002170 144.5 SNP_40001895 72.7 SNP_40001965 167.7 SNP_40001721 TA8 SNP_40001225 172.3 77.5 TA20 TA30 CaSTMS22 174.2 NCPGR165 82.9 PBA_CA_00164 179.3 SNP_40001332 83.6 SNP_40002221 190.9 SNP_40001395 89.3 SNP_40001171 102.8 SNP_40001936 108.0 TA113 109.2

2. Lasseter X ICC3996LG2.1 LG2.2 LG2.2 S95362 X Howzat LG2.1 PBA_CA_00919 0.0 SNP_40002010 0.0 PBA_CA_00919 SNP_40001743 SNP_40001744 0.0 0.0 SNP_40001613 2.4 SNP_40001211 5.6 SNP_40002145 2.7 SNP_40001705 SNP_40001706 5.9 SNP_40000191 3.4 SNP_40001970 6.3 SNP_40001254 6.9 SNP_40001793 NCPGR117 9.1 SNP_40002185 SNP_40002184 7.2 SNP_40002218 SNP_40002063 7.5 TA110 19.0 SNP_40002061 8.2 TA27 24.3 SNP_40002275 9.2 SNP_40001917 SNP_40000108 SNP_40002364 10.6 34.6 PBA_CA_00027 SNP_40000109 SNP_40000613 SNP_40001282 18.0 SNP_40002283 SNP_40000213 SNP_40001493 23.3 35.0 SNP_40000761 SNP_40000110 TA110 26.0 SNP_40000815 SNP_40000446 TA27 TA59 35.4 30.9 SNP_40000818 SNP_40000819 NCPGR193 SNP_40002503 37.1 SNP_40002504 SNP_40000757 37.5 SNP_40002640 SNP_40001968 37.9 SNP_40001969 SNP_40001884 52.6 SNP_40002503 49.8 SNP_40001883 SNP_40001882 SNP_40002422 50.8 53.5 SNP_40001881 SNP_40002306 SNP_40000810 55.3 SNP_40001317 65.7 SNP_40002354 61.0 SNP_40001876 68.2 SNP_40001501 SNP_40002564 62.3 SNP_40001680 68.5 SNP_40001648 SNP_40002094 SNP_40002564 76.8 SNP_40000309 63.2 SNP_40002094 SNP_40002096 77.1 SNP_40000317 SNP_40000305 SNP_40001501 SNP_40001648 77.8 SNP_40000300 SNP_40000316 SNP_40002354 78.5 SNP_40000111 78.8 SNP_40001452 79.5 SNP_40000953 82.4

3. S95362 X Howzat LG3 • Lasseter X ICC3996LG3 SNP_40000211 0.0 CaSTMS28 CaSTMS14 0.0 SNP_40002675 2.2 CaM0632 TA135 CaSTMS28 3.7 CaM1581 0.7 TA135 4.7 CaM1020 5.2 SNP_40001201 CaSTMS10 10.9 6.2 NCPGR141 SNP_40001201 11.6 12.5 SNP_40000609 NCPGR141 12.8 14.8 PBA_CA_00142 SNP_40000579 16.1 15.2 TA142 20.2 SNP_40001215 22.3 SNP_40002510 23.1 SNP_40000208 SNP_40000214 23.5 SNP_40000209 SNP_40002027 30.2 SNP_40002027 30.3 TA64 31.3 SNP_40002028 32.1 SNP_40000484 SNP_40000510 32.4 SNP_40000484 SNP_40000510 SNP_40000803 PBA_CA_00132 33.0 SNP_40000803 SNP_40001584 SNP_40000031 SNP_40000021 38.1 TA64 34.6 SNP_40000033 41.8 SNP_40002362 37.4 SNP_40000021 SNP_40000031 43.1 SNP_40000612 64.6 TA76s 80.6

4. LG4.2 SNP_40000642 SNP_40002577 0.0 SNP_40001748 SNP_40001090 0.0 SNP_40000726 0.4 SNP_40000840 0.3 SNP_40001669 2.2 SNP_40000194 0.6 SNP_40000874 SNP_40000875 10.6 SNP_40001505 2.7 SNP_40000923 13.3 SNP_40001819 SNP_40001817 22.1 SNP_40001307 SNP_40002433 25.8 SNP_40000752 33.1 SNP_40002171 35.3 SNP_40001801 SNP_40001463 35.7 SNP_40001310 24.7 SNP_40002071 43.0 SNP_40001035 25.0 SNP_40001527 43.9 SNP_40001235 SNP_40002423 44.8 SNP_40001385 SNP_40002271 45.2 SNP_40001506 47.9 SNP_40000806 SNP_40002081 50.1 SNP_40001427 SNP_40001428 51.0 SNP_40002493 SNP_40000946 51.4 SNP_40002128 51.8 SNP_40002084 52.7 TA72 54.7 TA146 55.2 SNP_40001411 60.2 SNP_40000813 SNP_40000812 62.4 SNP_40000811 63.3 SNP_40001238 65.0 TA130 65.6 SNP_40002474 66.2 SNP_40001529 SNP_40001748 69.3 SNP_40001487 69.7 SNP_40001505 SNP_40000574 72.4 SNP_40001785 76.1 SNP_40000426 SNP_40002569 76.5 SNP_40002508 76.9 SNP_40000427 78.2 SNP_40001391 80.9 SNP_40000882 92.7 SNP_40002011 117.4 SNP_40002154 118.7 SNP_40000636 134.8 SNP_40001834 PBA_CA_00286 135.7 SNP_40001837 137.1 SNP_40001141 Lasseter X ICC3996 LG4.1 S95362 X Howzat LG4 SNP_40000874 SNP_40000875 0.0 SNP_40000923 1.0 SNP_40001745 7.0 SNP_40000528 TA89 9.8 SNP_40000530 SNP_40002562 SNP_40002117 10.1 SNP_40001479 PBA_CA_00343 SNP_40001222 18.6 SNP_40000849 21.5 SNP_40002171 SNP_40000182 22.2 SNP_40000184 SNP_40002177 22.5 SNP_40001259 SNP_40000852 22.8 SNP_40000853 SNP_40001258 SNP_40001527 24.2 TA2 30.6 SNP_40001008 31.3 SNP_40001863 SNP_40002217 31.6 SNP_40001402 SNP_40002208 SNP_40002557 33.0 TA146 33.8 ab_2005/2009 TA72 35.1 ab_2009 SNP_40000185 59.4 SNP_40001144 SNP_40002225 60.4 SNP_40002226 SNP_40000390 SNP_40001230 SNP_40000397 61.1 SNP_40001785 SNP_40000426 SNP_40002500 67.6 SNP_40001529 SNP_40002525 67.9 SNP_40000160 SNP_40000749 68.6 SNP_40000925 73.0 SNP_40001238 73.3 TA130 75.0 SNP_40000750 84.1 ab_2005/2009 139.3 SNP_40002597 SNP_40001593 143.5 SNP_40002101 144.4 SNP_40001346 159.3

5. Lasseter X ICC3996LG6.1 S95362 X Howzat LG6 SNP_40000572 SNP_40002346 LG6.2 0.0 TA14 CaSTMS15 SNP_40002447 0.0 SNP_40000438 0.3 TA106 0.0 SNP_40000745 SNP_40001858 0.4 SNP_40000451 SNP_40000452 SNP_40001857 SNP_40001640 0.6 SNP_40000258 SNP_40001335 SNP_40000329 SNP_40000403 6.7 SNP_40000865 1.6 TA14 SNP_40000403 7.2 CaSTMS15 7.2 SNP_40001638 SNP_40001612 12.9 SNP_40001741 SNP_40001611 SNP_40001640 18.2 SNP_40001053 20.2 SNP_40000745 14.3 SNP_40002311 28.0 SNP_40002090 29.6 SNP_40001092 30.7 SNP_40000839 32.1 SNP_40000330 35.8 SNP_40001390 34.7 SNP_40002253 TA22 SNP_40001269 37.3 36.3 TA80 SNP_40001389 37.6 SNP_40001320 48.3 SNP_40001373 42.7 SNP_40001712 SNP_40000821 SNP_40002637 TA22 44.9 52.0 52.4 SNP_40001756 SNP_40001671 SNP_40000924 NCPGR71 TA80 45.3 52.8 SNP_40000972 52.7 SNP_40000914 SNP_40000334 SNP_40000962 55.0 SNP_40001884 55.9 SNP_40001380 SNP_40001379 SNP_40000553 53.1 SNP_40001384 58.0 SNP_40001899 60.6 SNP_40001416 68.9 SNP_40000707 73.1 SNP_40002005 71.4 SNP_40000871 75.3 TA106 75.7 SNP_40000963 81.8 SNP_40001053 93.7 SNP_40002124 98.9 SNP_40002090 103.5

6. Lasseter X ICC3996LG7.1 S95362 X Howzat LG7 SNP_40001929 SNP_40001323 0.0 SNP_40000760 SNP_40001456 LG7.2 SNP_40002200 1.0 SNP_40001246 SNP_40001726 SNP_40000986 0.0 15.8 CESSRDB16 0.0 SNP_40000768 SNP_40001558 SNP_40002452 16.1 SNP_40001670 10.2 SNP_40000519 16.8 SNP_40002261 11.2 SNP_40001025 12.4 SNP_40000935 SNP_40002196 18.2 SNP_40000030 11.5 SNP_40000937 SNP_40002109 SNP_40000935 SNP_40000186 12.2 22.4 SNP_40000543 18.9 SNP_40000937 PBA_CA_00093 17.6 SNP_40002100 SNP_40000659 19.2 SNP_40002196 23.7 SNP_40001719 19.9 SNP_40002391 24.1 CaSTMS9 20.3 SNP_40001246 SNP_40001726 25.0 SNP_40002483 26.2 SNP_40000768 SNP_40000776 SNP_40000866 CaM1159 26.9 SNP_40000884 31.9 TA78 TA127 CaM0286 36.8 27.7 TA93 SNP_40001855 31.0 SNP_40001630 41.2 SNP_40001043 46.4 TA44 TA44 47.5 56.1 SNP_40001856 72.7 SNP_40000503 94.2 SNP_40002261 SNP_40002262 98.8 SNP_40001670 99.7

7. Lasseter X ICC3996LG8 SNP_40001636 0.0 SNP_40000956 8.4 SNP_40001400 12.5 SNP_40000869 15.7 NCPGR138 17.7 S95362 X Howzat LG8 TA3 TA25 18.1 SNP_40001892 21.3 SNP_40001636 0.0 SNP_40000458 SNP_40000460 21.6 SNP_40000459 SNP_40000462 SNP_40002114 3.2 SNP_40000602 22.6 SNP_40000548 4.9 SNP_40001446 24.0 SNP_40001400 SNP_40001794 7.1 SNP_40000958 SNP_40001795 SNP_40000956 8.0 SNP_40001429 9.2 TA25 12.6 TA144 NCPGR138 13.1 SNP_40000445 PBA_CA_00123 14.1 TA144 38.7 SNP_40001075 18.7 SNP_40000458 SNP_40000459 21.9 SNP_40000460 PBA_CA_00126