Table 1 The analyses of reads mapped to the rabbit reference genome

Total reads

95,426,664

84,456,770

149,301,000

89,038,716

123,865,064

94,769,312

109,570,388

130,245,954

Total mapped

85,943,449 (90.06%)

75,328,473 (89.19%)

133,972,487 (89.73%)

79,823,704 (89.65%)

110,263,589 (89.02%)

84,819,962 (89.5%)

99,272,110 (90.6%)

117,162,667 (89.95%)

Multiple mapped

11,938,587 (12.51%)

9,315,870 (11.03%)

13,827,931 (9.26%)

10,659,938 (11.97%)

16,534,984 (13.35%)

9,777,660 (10.32%)

14,500,967 (13.23%)

11,066,700 (8.5%)

Uniquely mapped

74,004,862 (77.55%)

66,012,603 (78.16%)

120,144,556 (80.47%)

69,163,766 (77.68%)

93,728,605 (75.67%)

75,042,302 (79.18%)

84,771,143 (77.37%)

106,095,967 (81.46%)

Reads map to ‘+’

36,872,804 (38.64%)

32,897,302 (38.95%)

60,000,375 (40.19%)

34,636,589 (38.9%)

46,454,860 (37.5%)

37,454,686 (39.52%)

42,357,439 (38.66%)

52,928,464 (40.64%)

Reads map to ‘-’

37,132,058 (38.91%)

33,115,301 (39.21%)

60,144,181 (40.28%)

34,527,177 (38.78%)

47,273,745 (38.17%)

37,587,616 (39.66%)

42,413,704 (38.71%)

53,167,503 (40.82%)

Non-splice reads

56,778,516 (59.5%)

51,943,073 (61.5%)

89,625,539 (60.03%)

51,395,189 (57.72%)

74,099,166 (59.82%)

57,787,882 (60.98%)

65,280,836 (59.58%)

79,655,006 (61.16%)

Splice reads

17,226,346 (18.05%)

14,069,530 (16.66%)

30,519,017 (20.44%)

17,768,577 (19.96%)

19,629,439 (15.85%)

17,254,420 (18.21%)

19,490,307 (17.79%)

26,440,961 (20.3%)

Reads mapped in proper pairs

69,994,050 (73.35%)

62,138,530 (73.57%)

113,304,356 (75.89%)

65,315,796 (73.36%)

88,424,106 (71.39%)

70,592,926 (74.49%)

80,480,580 (73.45%)

100,326,142 (77.03%)