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Table 1 RADseq results in 18 plants using Hi-seq 2000 NGS platform

From: Identification of sex-linked SNP markers using RAD sequencing suggests ZW/ZZ sex determination in Pistacia vera L.

Parents and F1 plants Read number Total RAD sequence (bp)* Number of RAD tags Total sequence of RAD taqs (bp)** Coverage depth*** Sequence coverage**** GC rate (%) Total SNP Heterozygous SNP rate (%)
Females          
Siirt 15,873,498 1,301,626,836 422,422 34,638,604 37.6 2.0 37.65 90,999 17.3
P-F-1 24,754,856 2,029,898,192 442,751 36,305,582 55.9 3.1 37.12 98,348 26.9
P-F-2 22,527,994 1,847,295,508 513,815 42,132,830 43.8 2.8 37.60 97,562 28.0
P-F-3 28,035,806 2,298,936,092 513,654 42,119,628 54.6 3.5 37.07 99,776 25.3
P-F-4 33,578,112 2,753,405,184 560,479 45,959,278 59.9 4.2 36.86 101,339 30.5
P-F-5 23,563,272 1,932,188,304 539,390 44,229,980 43.7 2.9 37.47 98,767 31.9
P-F-6 23,374,790 1,916,732,780 523,591 42,934,462 44.6 2.9 37.38 98,876 29.9
P-F-7 28,326,906 2,322,806,292 539,702 44,255,564 52.5 3.5 36.88 100,355 27.4
P-F-8 25,474,290 2,088,891,780 431,895 35,415,390 59.0 3.2 37.64 96,551 17.5
Subtotal 225,509,524 18,491,780,968 4,487,699 367,991,318 451.6 28.0 - 882,573 -
Subaverage 25,056,614 2,054,642,330 498,633 40,887,924 50.2 3.1 37.30 98,064 26.1
Males          
Bağyolu 27,187,532 2,229,377,624 552,533 45,307,706 49.2 3.4 38.00 79,746 33.1
P-M-1 22,615,328 1,854,456,896 498,044 40,839,608 45.4 2.8 36.98 98,046 27.2
P-M-2 10,108,252 828,876,664 422,176 34,618,432 23.9 1.3 37.10 75,521 20.5
P-M-3 19,417,040 1,592,197,280 541,272 44,384,304 35.9 2.4 37.48 95,941 26.7
P-M-4 11,079,312 908,503,584 410,036 33,622,952 27.0 1.4 38.77 72,909 18.6
P-M-5 38,882,284 3,188,347,288 657,285 53,897,370 59.2 4.8 37.65 102,340 30.5
P-M-6 26,158,302 2,144,980,764 569,710 46,716,220 45.9 3.2 37.58 100,049 27.0
P-M-7 29,947,304 2,455,678,928 596,268 48,893,976 50.2 3.7 37.51 99,531 27.5
P-M-8 39,817,004 3,264,994,328 623,841 51,154,962 63.8 4.9 37.41 103,115 27.8
Subtotal 225,212,358 18,467,413,356 4,871,165 399,435,530 400.6 28.0 - 827,198 -
Subaverage 25,023,595 2,051,934,817 541,241 44,381,726 44.5 3.1 37.61 91,911 26.5
Total 450,721,882 36,959,194,324 9,358,864 767,426,848 852.2 56.0   1,709,771  
Average 25,040,105 2,053,288,574 519,937 42,634,825 47.3 3.1 37.45 94,987 26.3
  1. *Total RAD sequence was calculated by multiplying read number by 82 bp read length of Illumina.
  2. **Total sequence of RAD taqs was calculated by multiplying number of RAD tags by Illumina 82 bp read length.
  3. ***Coverage depth was calculated by dividing Illumina read number by number of RAD taqs.
  4. ****Sequence coverage was calculated by dividing total RAD sequence (bp) by the estimated genome size (660 Mbp) of pistachio.