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Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A1 F50 I1 R2	775	327.3	10718052	97.2%	10417946	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NZ_CP025268	262,011	Δ34,307 bp		ykfI–intF	46 genes ykfI, yafW, ykfH, ykfG, yafX, ykfF, CXP41_RS01315, CXP41_RS01320, CXP41_RS01325, CXP41_RS01330, yafZ, ykfA, perR, CXP41_RS01355, CXP41_RS01360, CXP41_RS01365, ykfC, CXP41_RS01385, mmuP, mmuM, fbpC, CXP41_RS01405, CXP41_RS01410, CXP41_RS01410, CXP41_RS01420, CXP41_RS01425, yagB, CXP41_RS24560, yagA, yagE, yagF, yagG, yagH, xynR, argF, argL, CXP41_RS01470, CXP41_RS01480, CXP41_RS01480, CXP41_RS01490, yagK, yagL, CXP41_RS01505, ykgV, CXP41_RS01515, intF

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NZ_CP025268	262011	296317	34307	345 [0]	[5] 351	ykfI–intF	ykfI,yafW,ykfH,ykfG,yafX,ykfF,CXP41_RS01315,CXP41_RS01320,CXP41_RS01325,CXP41_RS01330,yafZ,ykfA,perR,CXP41_RS01355,CXP41_RS01360,CXP41_RS01365,ykfC,CXP41_RS01385,mmuP,mmuM,fbpC,CXP41_RS01405,CXP41_RS01410,CXP41_RS01410,CXP41_RS01420,CXP41_RS01425,yagB,CXP41_RS24560,yagA,yagE,yagF,yagG,yagH,xynR,argF,argL,CXP41_RS01470,CXP41_RS01480,CXP41_RS01480,CXP41_RS01490,yagK,yagL,CXP41_RS01505,ykgV,CXP41_RS01515,intF

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP025268	= 262010	0 (0.000)	188 (1.080)	54/156	0.2	100%	intergenic (+11/+371)	CXP41_RS01280/ykfI	tRNA‑Thr/type IV toxin‑antitoxin system toxin YkfI
*	?	NZ_CP025268	296318 =	0 (0.000)	188 (1.080)	54/156	0.2	100%	intergenic (‑170/+115)	intF/CXP41_RS01530	integrase family protein/LysR substrate‑binding domain‑containing protein

GATK/CNVnator alignment

N/A