#	C methylated in CHG context:	C methylated in CHH context:	C methylated in CpG context:	C methylated in Unknown context (CN or CHN):	CT/CT:	CT/GA:	GA/CT:	GA/GA:	Mapping efficiency:	Number of alignments to (merely theoretical) complementary strands being rejected in total:	Number of alignments with a unique best hit from the different alignments:	Sequences analysed in total:	Sequences did not map uniquely:	Sequences which were discarded because genomic sequence could not be extracted:	Sequences with no alignments under any condition:	Total methylated C's in CHG context:	Total methylated C's in CHH context:	Total methylated C's in CpG context:	Total methylated C's in Unknown context:	Total number of C's analysed:	Total unmethylated C's in CHG context:	Total unmethylated C's in CHH context:	Total unmethylated C's in CpG context:	Total unmethylated C's in Unknown context:
bowtie1.droprep	1.1%	14.7%	0.9%	nan	563841	88342	0	0	1.0%	0	652183	66320217	264207	2349	65403827	8908	326907	6875	nan	3832164	818114	1890369	780991	nan
bowtie1.droprep.pbat	1.4%	18.9%	1.0%	nan	0	0	497968	144217	1.0%	nan	642185	66320217	317321	674	65360711	12148	452609	8295	nan	4113876	844889	1947677	848258	nan
bowtie1.droprep.pbat.untrimmed	1.7%	5.0%	1.9%	nan	0	0	243900	91042	0.5%	nan	334942	67352648	29628	322	66988078	11860	81716	11973	nan	2999053	706717	1561666	625121	nan
bowtie1.droprep.untrimmed	2.3%	8.2%	1.2%	nan	286150	60816	0	0	0.5%	0	346966	67352648	22886	6	66982796	14285	108510	6989	nan	2528878	613771	1219287	566036	nan
bowtie2.dm6	1.0%	2.2%	1.2%	2.6%	6132542	3048609	0	0	39.1%	0	9181151	23487678	67848	0	14238679	242659	1625065	243514	955	118759463	22887335	73247412	20513478	36074
bowtie2.dm6.pbat	0.9%	3.6%	1.1%	nan	0	0	10364426	5036851	47.2%	nan	15401278	32638118	985108	1	16251732	249626	3182054	270246	0	140561919	26675860	85734408	24449725	0
bowtie2.dm6.pbat.untrimmed	1.0%	2.4%	1.1%	1.2%	0	0	6323559	2996334	43.7%	nan	9319893	21327366	82508	0	11924965	236248	2068571	224117	506	129032236	23697483	82381276	20424541	40272
bowtie2.dm6.untrimmed	0.9%	5.2%	1.0%	3.8%	9460712	4922933	0	0	44.1%	0	14383645	32616437	809443	0	17423349	217926	3981064	230249	18	123888661	24057883	73031622	22369917	452
bowtie2.droprep	0.5%	7.0%	0.5%	0.0%	453886	30679	0	0	0.7%	0	485626	66320217	166061	1061	65668530	3624	117040	3731	0	3241497	794908	1563580	758614	12
bowtie2.droprep.pbat	0.6%	10.7%	0.7%	0.0%	0	0	342413	46967	0.7%	nan	389413	58030190	175464	33	57465313	4170	150157	5025	0	2856543	715862	1255255	726074	9
bowtie2.droprep.pbat.untrimmed	1.0%	0.8%	0.9%	22.1%	0	0	178558	9817	0.3%	nan	188375	67352648	11844	0	67152429	6792	8890	5127	40	2390338	667516	1115555	586458	141
bowtie2.droprep.untrimmed	0.6%	0.7%	0.7%	0.7%	180428	4091	0	0	0.3%	0	184519	67352648	5960	0	67162169	3686	6829	3671	5	2153474	601688	982971	554629	702