De novo transcriptome assembly of Pueraria montana var. lobata and Neustanthus phaseoloides for the development of eSSR and SNP markers: narrowing the US origin(s) of the invasive kudzu

Table 3 Single nucleotide polymorphism detection among kudzu and tropical kudzu genotypes

Comparison	HC SNPs	SNPs > 95%^a	SNPs >20x^b	Total SNPs^c	Ts/Tv
Pmnk6 vs CPP27	10,417	6016	426	358	1.41
Pmnk6 vs CPP27	(7494/2923)	(4125/1891)	(252/174)	358	1.41
CPP02 vs CPP27	99,584	86,626	5831	5185	1.60
CPP02 vs CPP27	(81,276/18308)	(70,638/15988)	(5091/740)	5185	1.60
CPP02 vs Pmnk6	220,739	174,884	21,258	19,028	1.73
CPP02 vs Pmnk6	(164,118/56621)	(127,311/47573)	(19,255/2003)	19,028	1.73
CPP02 vs Pmnk6, CPP27	314,416	248,719	33,603	30,143	1.71
CPP02 vs Pmnk6, CPP27	(229,163/85251)	(178,102/70617)	(29,812/3791)	30,143	1.71
Japan vs Pmnk6, CPP27, China	494,234	79,088	27,108	24,475	1.47
Japan vs Pmnk6, CPP27, China	(494,234/0)	(79,088/0)	(27,108/0)	24,475	1.47

^aSNPs with the > 95% frequency
^bSNPs with > 95% frequency and > 20x coverage
^cOne-to-one point mutations after exclusion of indels and length variants; HC: high confidence; parentheses: (contigs/singletons)

ISSN: 1471-2164