Table 3.

Significant Differentially Expressed RGHs between ‘Alamo’ and ‘Dacotah’

Gene ID	Chromosome	Gene start location	Gene end location	Alamo RPKMameans	Dacotah RPKMameans	Fold changeb	FDR corrected p-value3
Pavir.Ha01577	Chr08a	45819137	45820543	0.074	11.565	54.837	6.03E-08
Pavir.Hb00191	Chr08b	3683280	3690800	22.965	4.363	−5.724	1.02E-07
Pavir.J41099	contig99714	31	3755	10.721	0.387	−23.222	6.52E-07
Pavir.Ha00254	Chr08a	5275668	5283177	8.387	0.088	−43.065	2.74E-06
Pavir.Ea02999	Chr05a	52240105	52245554	7.763	0.145	−31.66	9.51E-06
Pavir.J18698	contig20439	2509	7946	0.019	10.273	68.028	1.57E-05
Pavir.J36183	contig58243	960	5090	7.474	0.014	−57.923	1.77E-05
Pavir.Ha00258	Chr08a	5331659	5334691	12.753	0.617	−18.44	3.17E-05
Pavir.Ba03626	Chr02a	73291071	73293182	0.139	8.63	30.634	5.28E-05
Pavir.J38310	contig74920	865	4419	0.377	8.784	16.208	5.28E-05
Pavir.J13560	contig156657	131	2675	0.565	8.893	11.899	1.71E-04
Pavir.J35611	contig54273	2061	5449	0.195	5.96	17.525	4.86E-03
Pavir.J01215	contig01325	2932	5562	7.052	1.095	−6.492	5.22E-03
Pavir.J03054	contig03762	12948	18535	4.087	0.096	−20.509	7.55E-03
Pavir.Aa01110	Chr01a	14217597	14230708	3.764	0.03	−26.75	0.013
Pavir.Ha01146	Chr08a	31223571	31227884	0.703	5.777	6.478	0.019
Pavir.Cb00441	Chr03b	7318929	7322714	11.648	26.964	2.068	0.034
Pavir.Bb00035	Chr02b	557471	559270	0.054	3.333	18.041	0.041
Pavir.Ha00828	Chr08a	23240515	23246499	3.354	0.02	−25.367	0.041
Pavir.J29227	contig33532	301	4214	3.316	0.035	−22.844	0.041
Pavir.J02637	contig03134	4596	14505	4.903	0.772	−6.169	0.048

^a RPKM reads per kilobase per million of reads mapped

^bFold Change = expression level difference between the two samples when using ‘Dacotah’ as the reference sample

³FDR corrected p-value = p-value that the Fold Change is significant based on the corrected False Discovery Rate