# Summary statistics, used for scaling the plots.
SS	Number of files:	1
SS	Number of amplicons:	vir1	2
SS	Reference length:	vir1	800
SS	End of summary
# Amplicon locations from BED file.
# LEFT/RIGHT are <start>-<end> format and comma-separated for alt-primers.
#
# AMPLICON	REF	NUMBER	LEFT	RIGHT
AMPLICON	vir1	1	31-54	386-410
AMPLICON	vir1	2	321-342	705-726
# Summary stats.
# Use 'grep ^FSS | cut -f 2-' to extract this part.
FSS	mixed_clipped	vir1	raw total sequences:	8
FSS	mixed_clipped	vir1	filtered sequences:	0
FSS	mixed_clipped	vir1	failed primer match:	2
FSS	mixed_clipped	vir1	matching sequences:	6
FSS	mixed_clipped	vir1	consensus depth count < 1 and >= 1:	132	517
# Absolute matching read counts per amplicon.
# Use 'grep ^FREADS | cut -f 2-' to extract this part.
FREADS	mixed_clipped	5	1
FVDEPTH	mixed_clipped	2	0
# Read percentage of distribution between amplicons.
# Use 'grep ^FRPERC | cut -f 2-' to extract this part.
FRPERC	mixed_clipped	83.333	16.667
# Read depth per amplicon.
# Use 'grep ^FDEPTH | cut -f 2-' to extract this part.
FDEPTH	mixed_clipped	2.8	0.5
# Percentage coverage per amplicon
# Use 'grep ^FPCOV | cut -f 2-' to extract this part.
FPCOV-1	mixed_clipped	100.00	51.80
# Depth per reference base for ALL data.
# Use 'grep ^FDP_ALL | cut -f 2-' to extract this part.
FDP_ALL	mixed_clipped	vir1	0,54	2,77	3,254	0,25	1,294	0,96
# Depth per reference base for full-length valid amplicon data.
# Use 'grep ^FDP_VALID | cut -f 2-' to extract this part.
FDP_VALID	mixed_clipped	vir1	0,54	2,331	0,415
# Distribution of aligned template coordinates.
# Use 'grep ^FTCOORD | cut -f 2-' to extract this part.
FTCOORD	mixed_clipped	1	55,385,2,0
FTCOORD	mixed_clipped	2
# Classification of amplicon status.  Columns are
# number with both primers from this amplicon, number with
# primers from different amplicon, and number with a position
# not matching any valid amplicon primer site
# Use 'grep ^FAMP | cut -f 2-' to extract this part.
FAMP	mixed_clipped	0	2	0	2
FAMP	mixed_clipped	1	2	0	1
FAMP	mixed_clipped	2	0	0	1
# Summary stats.
# Use 'grep ^CSS | cut -f 2-' to extract this part.
CSS	COMBINED	vir1	raw total sequences:	8
CSS	COMBINED	vir1	filtered sequences:	0
CSS	COMBINED	vir1	failed primer match:	2
CSS	COMBINED	vir1	matching sequences:	6
CSS	COMBINED	vir1	consensus depth count < 1 and >= 1:	649	0
# Absolute matching read counts per amplicon.
# Use 'grep ^CREADS | cut -f 2-' to extract this part.
CREADS	COMBINED	5	1
CVDEPTH	COMBINED	2	0
CREADS	MEAN	5.0	1.0
CREADS	STDDEV	0.0	0.0
# Read percentage of distribution between amplicons.
# Use 'grep ^CRPERC | cut -f 2-' to extract this part.
CRPERC	COMBINED	83.333	16.667
CRPERC	MEAN	83.333	16.667
CRPERC	STDDEV	0.000	0.000
# Read depth per amplicon.
# Use 'grep ^CDEPTH | cut -f 2-' to extract this part.
CDEPTH	COMBINED	2.8	0.5
CDEPTH	MEAN	2.8	0.5
CDEPTH	STDDEV	0.0	0.0
CPCOV-1	MEAN	100.0	51.8
CPCOV-1	STDDEV	0.0	0.0
# Depth per reference base for ALL data.
# Use 'grep ^CDP_ALL | cut -f 2-' to extract this part.
CDP_ALL	COMBINED	vir1	0,54	2,77	3,254	0,25	1,294	0,96
# Depth per reference base for full-length valid amplicon data.
# Use 'grep ^CDP_VALID | cut -f 2-' to extract this part.
CDP_VALID	COMBINED	vir1	0,54	2,331	0,415
# Distribution of aligned template coordinates.
# Use 'grep ^CTCOORD | cut -f 2-' to extract this part.
CTCOORD	COMBINED	1	55,385,2,0
CTCOORD	COMBINED	2
# Classification of amplicon status.  Columns are
# number with both primers from this amplicon, number with
# primers from different amplicon, and number with a position
# not matching any valid amplicon primer site
# Use 'grep ^CAMP | cut -f 2-' to extract this part.
CAMP	COMBINED	0	2	0	2
CAMP	COMBINED	1	2	0	1
CAMP	COMBINED	2	0	0	1
