Identification of novel alternative splicing associated with mastitis disease in Holstein dairy cows using large gap read mapping

Table 1 Alignment statistics of the 12 milk somatic cells samples collected from 6 Holstein dairy cows^a

Group	Sample ID	Total reads mapped	Uniquely mapped reads%	Non - specifically mapped reads%	Unmapped reads%
Healthy	50A^b	22,791,224	91.35	5.19	3.46
	50C^c	12,757,084	81.84	7.50	10.67
	50E^d	11,257,761	85.75	5.56	8.70
	50G^e	9,041,681	78.70	4.87	16.43
	70A^f	11,737,755	87.18	12.34	0.47
	70E^g	16,124,047	95.17	4.36	0.48
		Total = 83,709,552	Av = 86.66	Av = 6.63	Av = 6.70
Mastitic	50B^b	18,884,191	93.19	5.20	1.61
	50D^c	26,510,003	92.70	6.47	0.83
	50F^d	14,613,683	91.21	5.67	3.11
	50H^e	15,174,409	90.40	6.86	2.75
	70C^f	10,692,707	95.33	3.93	0.74
	70G^g	12,365,761	95.63	3.95	0.41
		Total = 98,240,754	Av = 93.08	Av = 5.35	Av = 1.58

^aSamples were aligned to the ARS_UCD1.2 bovine reference genome; ^bThese samples were collected from the same cow (3rd lactation, 74 DIM); ^cThese samples were collected from the same cow (2nd lactation, 44 DIM); ^dThese samples were collected from the same cow (3rd lactation, 178 DIM); ^eThese samples were collected from the same cow (2nd lactation, 133 DIM); ^fThese samples were collected from the same cow (2nd lactation, 7 DIM); ^gThese samples were collected from the same cow (1st lactation, 236 DIM)

ISSN: 1471-2164