Table 2

Reference genome assembly of clinical ovine isolates using simulated MAP S397 genome

JTC1074

JTC7565

Reference organism

MAP S397

MAP S397

Reference length

4,766,015

4,766,015

Consensus length

4,753,502

4,742,737

%Homology^a to S397

99.74

99.51

%Homology to K-10

98.79

98.56

Average Coverage^b

59.89

62.77

Standard deviation

32.36

34.65

Non-specific matches read count^c

1387

1461

Paired read distance distribution

140-360

120-380

No. of SNPs

70

53

^aHomology% was calculated as: consensus length divided by reference length and then multiplied by 100

^bAverage coverage is the average of all the reads in each area in the consensus sequence

^cNon-specific match read counts are those reads that can be matched more than one place in the reference genome and such reads were randomly placed in one of the matched spots

Bannantine et al. BMC Genomics 2012 13:89   doi:10.1186/1471-2164-13-89