Table 3.

Physical locations of FISH-mapped BACs in G. hirsutum draft genome assembly and cytogenetic map.

BAC	SSR marker	Loc. in AD1*1 draft genome				Loc. in AD1 Cytogenetic map *3
		No. of chromosome	Start (bp)	End (bp)	RMP(%)*2	Dh01 RMP(%)	Ah01 RMP(%)
305A19	NAU2015	Dh01	60681011	60681490	1.26	3.00±0	4.51±0.41
378J07	HAU076	Ah01	96488204	96488397	3.40	/	8.01±0.48
144E04	NAU2474	Dh01	57722851	57723034	6.07	4.33±0.47	/
		scaffold183_A01	19925	20108	/	/	9.01±1.25
348I20	NAU3254	Dh01	59322542	59322834	3.47	8.33±0.47	10.02±0.51
64M24	NAU3433	Ah01	90268406	90268610	9.63	/	15.00±0.47
		Dh01	53813626	53813830	12.44	11.33±1.24	/
400N03	BNL2921	Ah01	40133025	40133182	59.82	84.66±0.47	61.99±0.94
423C18	TMB0062	Ah01	17562250	17562499	82.42	70.66±5.24	74.11±0.36
118G12	NAU4891	Ah01	17991434	17991731	81.99	79.33±4.49	84.01±1.10
85P13	NAU3135	Ah01	11722545	11722728	88.26	/	88.07±0.19
		Dh01	9387192	9387374	84.73	85.33±0.47	/
D1	BNL3902*4	Dh01	26803236	26803427	56.38	69.66±0.94	/
164I21	BNL3888b	Ah01	11084705	11084886	88.90	88.66±1.69	90.98±0.27
421E24	BNL3580	Ah01	7078093	7078309	92.91	89.00±1.41	92.99±0.65
400L15	NAU4044	Ah01	2245730	2245951	97.75	/	96.01±1.19
		scaffold3710_D01	109956	110177	/	90.33±1.24	/

Note: *1, the AD₁-NBI draft genome (Zhang et al. 2015);

*2, RMP: relative map position, in cytogenetic map, it refers to the percentage of the distance (μm) from the FISH signal site to the end of the one arm accounting for the total length of the chromosome; in sequence map, it refers to the percentage of the sequence location of the corresponding SSRs of BACs accounting for the total length of the chromosome (A_h01 = 99884700 bp, D_h01 = 61456009 bp);

*3, 5-8 cells were used for measurement;

*4 corresponding SSR of D_h01-specific BAC.