File	Total Reads	Aligned Reads	Unaligned Reads	Ambiguously Aligned Reads	No Genomic Sequence	Duplicate Reads (removed)	Unique Reads (remaining)	Total Cs	Methylated CpGs	Unmethylated CpGs	Methylated chgs	Unmethylated chgs	Methylated CHHs	Unmethylated CHHs
Pum1_pe.bam	38376265	25215539	7224831	5935895	26			1113730350	26808085	108154648	1147267	188916924	5078298	783625128
Qui1_pe.bam	38720614	26013001	6408804	6298809	41			1170109245	28057300	117409166	1524001	198747677	6732122	817638979
Qui2_pe.bam	36627727	24485685	6281750	5860292	42			1064712291	28584973	100975134	1344539	179781446	6040987	747985212
Qui3_pe.bam	41446330	27932618	6885441	6628271	50			1228796229	31320139	118110417	1472409	207151122	6646960	864095182
Qui4_pe.bam	34443887	23165102	5608285	5670500	29			1024091158	25053330	102258341	1172495	174805730	5176140	715625122
Rio1_pe.bam	41519830	28437067	6806531	6276232	42			1251628692	31868450	122279115	1372759	212348896	6112017	877647455
Rio2_pe.bam	35781535	24164697	5994084	5622754	36			1063043883	26542479	103459931	1189012	181041766	5256881	745553814
Rio3_pe.bam	32773197	22237509	5282829	5252859	23			956064247	25216741	92238862	1257894	163235206	5590161	668525383
Rio4_pe.bam	39972937	27272038	6599281	6101618	40			1201168210	30907476	117220945	1522014	203671781	6730872	841115122