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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
A7 F999 I0 R1	79	90.6	6749123	97.8%	6600642	49.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	4,496,676	Δ53,036 bp		intB–fimH	54 genes intB, insC‑6, insD‑6, yjgX, yjgZ, insG, yjhB, yjhC, ythA, yjhD, yjhE, insO, insI‑3, insO, insO, yjhV, fecE, fecD, fecC, fecB, fecA, fecR, fecI, insA‑7, yjhU, yjhF, yjhG, yjhH, yjhI, sgcR, sgcE, sgcA, ryjB, sgcQ, sgcC, sgcB, sgcX, yjhP, yjhQ, topAI, yjhZ, yjhR, nanS, nanM, nanC, fimB, fimE, fimA, fimI, fimC, fimD, fimF, fimG, fimH

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	4496676	4549711	53036	113 [0]	[0] 115	intB–fimH	intB,insC‑6,insD‑6,yjgX,yjgZ,insG,yjhB,yjhC,ythA,yjhD,yjhE,insO,insI‑3,insO,insO,yjhV,fecE,fecD,fecC,fecB,fecA,fecR,fecI,insA‑7,yjhU,yjhF,yjhG,yjhH,yjhI,sgcR,sgcE,sgcA,ryjB,sgcQ,sgcC,sgcB,sgcX,yjhP,yjhQ,topAI,yjhZ,yjhR,nanS,nanM,nanC,fimB,fimE,fimA,fimI,fimC,fimD,fimF,fimG,fimH

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4496675	0 (0.000)	111 (1.280)	65/96	0.0	100%	intergenic (+186/‑75)	leuX/intB	tRNA‑Leu/KpLE2 phage‑like element; putative integrase
*	?	NC_000913	4549712 =	0 (0.000)	111 (1.280)	65/96	0.0	100%	intergenic (+2/+241)	fimH/gntP	type 1 fimbriae D‑mannose specific adhesin/fructuronate transporter

GATK/CNVnator alignment

N/A