Expressed sequence tags (ESTs) from immune tissues of turbot (Scophthalmus maximus) challenged with pathogens

BMC Veterinary Research

Table 3 Summary statistics of SNP identification from turbot EST resources

	Real SNPs	True SNPs andSNPs
Total sequences analysed	12584
Number of contigs	257	255
Total SNPs detected	2197	1158
SNP frequency	1.39/100 bp	0.74/100 bp
Total number of transitions	749	453
C/T	556	344
A/G	193	109
Total number of transversions	974	558
A/T	161	87
A/C	352	214
T/G	251	130
C/G	210	127
Total number of indels	366	125
Tri-allelic polymorphisms	99	21
Tetra-allelic polymorphisms	9	1

Real SNPs are those which passed quality filters 1 and 2 using the pipeline QualitySNP and true SNPs are the highest quality SNPs passing the three filters (see Methods).

ISSN: 1746-6148