Table 3.

Details of CaLGs, number of markers and synteny with M. truncatula and G. max chromosomes

Chickpea LGs	Markers	Markers selected for blast	Mt chromosome (chickpea orthologs)	Gm chromosome (chickpea orthologs)
CaLG1	119	107	Mt2(35) Mt4(3) Mt1(2) Mt5(2) Mt7(2) Mt3(1) Mt6(1) Mt8(1)	Gm15(19) Gm13(17) Gm9(4) Gm8(3) Gm17(3) Gm3(2) Gm10(2) Gm11(2) Gm20(2) Gm1(1) Gm4(1) Gm5(1) Gm6(1) Gm7(1) Gm14(1) Gm19(1)
CaLG2	138	115	Mt4(19) Mt5(9) Mt3(5) Mt6(4) Mt2(2) Mt7(2) Mt8(2)	Gm12(10) Gm11(7) Gm6(4) Gm9(4) Gm15(4) Gm18(4) Gm1(3) Gm5(3) Gm13(3) Gm20(3) Gm4(2) Gm7(2) Gm10(2) Gm14(2) Gm19(2) Gm3(1)
CaLG3	205	179	Mt7(35) Mt5(23) Mt3(7) Mt2(6) Mt6(6) Mt8(4) Mt4(2) Mt1(3)	Gm19(29) Gm3(26) Gm1(12) Gm9(8) Gm10(7) Gm6(2) Gm7(6) Gm11(6) Gm13(5) Gm2(4) Gm5(4) Gm18(4) Gm20(4) Gm4(3) Gm6(2) Gm8(2) Gm12(2) Gm15(2) Gm16(2) Gm14(1) Gm17(1)
CaLG4	168	152	Mt1(31) Mt5(5) Mt3(3) Mt4(3) Mt7(2) Mt6(1)	Gm10(18) Gm20(11) Gm17(9) Gm1(7) Gm14(7) Gm8(5) Gm11(5) Gm12(5) Gm3(4) Gm9(4) Gm18(4) Gm5(3) Gm6(2) Gm7(2) Gm13(2) Gm15(2) Gm2(1) Gm4(1) Gm19(1)
CaLG5	141	119	Mt3(34) Mt1(5) Mt7(5) Mt2(4) Mt5(4) Mt4(2) Mt6(1) Mt8(1)	Gm6(19) Gm4(18) Gm20(7) Gm14(6) Gm18(6) Gm13(5) Gm11(3)Gm1(2) Gm2(2) Gm8(2) Gm17(2)Gm3(1) Gm5(1) Gm7(1) Gm19(1)
CaLG6	108	86	Mt8(15) Mt5(7) Mt7(5) Mt2(4) Mt3(4) Mt4(3) Mt6(3) Mt1(2)	Gm8(11) Gm5(9) Gm13(4) Gm18(4) Gm20(4) Gm6(3) Gm7(3) Gm11(3) Gm1(1) Gm2(1) Gm3(1) Gm10(1) Gm12(1) Gm14(1) Gm16(1) Gm17(1) Gm19(1)
CaLG7	100	81	Mt8(13) Mt3(6) Mt2(5) Mt5(4) Mt7(4) Mt1(3) Mt4(3) Mt6(1)	Gm7(6) Gm14(6) Gm7(6) Gm14(6) Gm5(4) Gm6(4) Gm16(4) Gm17(4) Gm1(3) Gm2(3) Gm8(3) Gm11(3) Gm13(3) Gm18(3) Gm4(2) Gm9(2) Gm19(2) Gm12(1) Gm15(1) Gm20(1)
CaLG8	84	78	Mt4(22) Mt2(4) Mt6(4) Mt1(3) Mt3(3) Mt7(3) Mt8(3) Mt5(2)	Gm17(20) Gm7(8) Gm13(8) Gm5(6) Gm6(6) Gm4(5) Gm9(4) Gm15(4) Gm10(3) Gm14(3) Gm18(3) Gm19(3) Gm3(2) Gm11(2) Gm12(2) Gm16(2) Gm20(2) Gm8(1)
Total	1063	917	404	609