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
zr1394_10_s456_trimmed_bismark_bt2.bam	78221457	3147151	71822548	3251683	75	2837021	310130	1940126	184224	81087	13483	249490	221285	1190557
zr1394_11_s456_trimmed_bismark_bt2.bam	54458572	2533256	49708344	2216912	60	2228585	304671	1903561	205058	85540	12613	251339	183446	1165565
zr1394_12_s456_trimmed_bismark_bt2.bam	59459431	2728244	53907751	2823352	84	2310879	417365	2575743	226998	117529	14505	349443	249861	1617407
zr1394_13_s456_trimmed_bismark_bt2.bam	64352550	3006730	58253464	3092273	83	2635369	371361	2317028	246179	93775	15000	307464	227786	1426824
zr1394_14_s456_trimmed_bismark_bt2.bam	87834637	4288102	79466280	4080175	80	3840822	447280	2753570	286266	112046	17092	356809	251098	1730259
zr1394_15_s456_trimmed_bismark_bt2.bam	67984205	3168935	61719035	3096175	60	2803236	365699	2275320	252344	87619	15544	300108	227198	1392507
zr1394_16_s456_trimmed_bismark_bt2.bam	74531056	3531987	67728813	3270174	82	3136869	395118	2439608	263400	101061	16049	317768	234544	1506786
zr1394_17_s456_trimmed_bismark_bt2.bam	42070546	1869165	38251437	1949896	48	1578377	290788	1825743	202011	70791	12480	249245	193496	1097720
zr1394_18_s456_trimmed_bismark_bt2.bam	55048106	2536630	49739989	2771412	75	2151933	384697	2391747	228558	102063	13938	328800	225068	1493320
zr1394_1_s456_trimmed_bismark_bt2.bam	46792286	2117393	42430582	2244259	52	1758255	359138	2224066	219081	100089	13541	301405	210878	1379072
zr1394_2_s456_trimmed_bismark_bt2.bam	46105140	2050901	41863391	2190785	63	1699079	351822	2184474	213059	94747	13257	300551	216278	1346582
zr1394_3_s456_trimmed_bismark_bt2.bam	48376729	2160178	43980854	2235627	70	1795758	364420	2247377	220270	97022	13219	300651	205636	1410579
zr1394_4_s456_trimmed_bismark_bt2.bam	44905078	2010065	40784777	2110162	74	1670445	339620	2113978	222919	81651	13165	288530	199090	1308623
zr1394_5_s456_trimmed_bismark_bt2.bam	47401736	2079460	42966736	2355467	73	1690809	388651	2397810	196351	123953	13520	328465	238368	1497153
zr1394_6_s456_trimmed_bismark_bt2.bam	46455148	2013209	42132594	2309276	69	1629030	384179	2354787	198359	101931	12844	320460	216864	1504329
zr1394_7_s456_trimmed_bismark_bt2.bam	49730113	2247624	45094621	2387804	64	1878851	368773	2285525	231457	97876	14129	310464	213306	1418293
zr1394_8_s456_trimmed_bismark_bt2.bam	38697189	1779107	35045244	1872780	58	1464613	314494	1963151	213026	74232	11872	269542	183281	1211198
zr1394_9_s456_trimmed_bismark_bt2.bam	77350922	3614788	69851458	3884587	89	3133239	481549	2945477	251709	128793	16074	389241	272980	1886680
zr1394_all_s456_trimmed_bismark_bt2.bam	605809374	27806009	550394238	27608456	671	26676032	1129977	6688214	537926	276545	50095	833957	784788	4204903