BRESEQ :: Mutation Predictions

breseq version 0.35.7 revision b7a44cd89118
mutation predictions | marginal predictions | summary statistics | genome diff | command line log

Predicted mutations
evidence	seq id	position	mutation	annotation	gene	description
MC JC	ADP1‑WT	321,574	Δ1,237 bp		ACIAD0320–[ACIAD0323]	ACIAD0320, ACIAD0321, [ACIAD0323]
MC JC	ADP1‑WT	941,306	Δ3,549 bp	IS1236‑mediated	ACIAD0952–[ACIAD0959]	ACIAD0952, ACIAD0953, ACIAD0955, ACIAD0956, ACIAD0957, ACIAD0958, [ACIAD0959]
MC JC	ADP1‑WT	1,248,192	Δ1,237 bp		ACIAD1249–[csrA]	ACIAD1249, ACIAD1250, [csrA]
MC JC	ADP1‑WT	1,799,601	Δ1,237 bp		[ACIAD1790]–[ACIAD1794]	[ACIAD1790], ACIAD1791, ACIAD1792, [ACIAD1794]
MC JC	ADP1‑WT	2,726,455	Δ1,268 bp		ACIAD2779–ACIAD2782	ACIAD2779, ACIAD2780, ACIAD2781, ACIAD2782

Unassigned missing coverage evidence
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	ADP1‑WT	1668723	1722720	53998	40 [0]	[0] 36	ACIAD1664–[quiA]	ACIAD1664,ACIAD1665,ACIAD1666,ACIAD1667,ACIAD1668,ACIAD1669,ACIAD1670,ACIAD1671,ACIAD1672,ACIAD1673,ACIAD1674,ACIAD1675,ACIAD1676,ACIAD1677,ACIAD1678,ACIAD1679,etfD,mucK,caiB,dcaS,ACIAD1685,caiB,dcaR,dcaF,dcaH,dcaC,dcaE,dcaA,dcaK,dcaI,dcaJ,dcaP,ACIAD1698,ACIAD1699,acdB,ACIAD1701,pcaU,pcaI,pcaJ,pcaF,pcaB,pcaD,pcaK,pcaC,pcaH,pcaG,aroD,quiC,quiX,[quiA]

Unassigned new junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	ADP1‑WT	= 1668722	0 (0.000)	40 (2.300)	37/250	0.1	100%	intergenic (‑145/+101)	ACIAD1663/ACIAD1664	hypothetical protein/phosphatidate cytidylyltransferase
*	?	pYTK001_with_tdk_kan	14 =	0 (NA)	40 (2.300)	37/250	0.1	100%	intergenic (–/+1797)	–/CamR	–/–
*	?	ADP1‑WT	1722721 =	0 (0.000)	36 (2.070)	30/250	0.2	100%	coding (1536/2397 nt)	quiA	quinate/shikimate dehydrogenase [pyrroloquinoline‑quinone] (NAD(P)‑independent quinate dehydrogenase)
*	?	pYTK001_with_tdk_kan	= 1688	0 (NA)	36 (2.070)	30/250	0.2	100%	intergenic (–/+123)	–/CamR	–/–