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
A2 F3 I0 R1	328	90.1	2317887	85.2%	1974839	62.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	317,881	G→T	100%	G959G (GGG→GGT)	kefA →	fused mechanosensitive channel proteins

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	317,881	0	G	T	86.0%	219.0 / 38.1	100	G959G (GGG→GGT)	kefA	fused mechanosensitive channel proteins
Reads supporting (aligned to +/- strand): ref base G (14/0); new base T (0/86); total (14/86)
Fisher's exact test for biased strand distribution p-value = 2.26e-17
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

ATTCTATTCGAACGTCCGGTGCGTATTGGCGATACGGTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAT  >  minE/317822‑317923

aTTCTGTTCGAGCGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:100012/67‑3 (MQ=25)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTATGgtca                                     <  1:149202/67‑3 (MQ=25)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2234422/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:381081/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:335055/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:302004/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:299984/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:266045/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:256377/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:244645/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:237646/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:236782/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:383820/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2188511/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2182180/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2121340/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2098376/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2023520/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2017252/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:200621/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2001783/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1966254/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:743118/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:993426/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:986311/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:98050/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:970464/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:96694/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:916867/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:881551/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:823833/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:814194/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:744301/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2053272/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:735310/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:727292/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:705011/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:643262/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:630799/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:628262/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:586955/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:538106/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:53541/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:476700/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1360773/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1478481/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1466071/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1461875/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1413445/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1042815/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:107323/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1391160/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:110144/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1458761/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1107510/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1351808/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1120794/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1327914/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1309518/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1247642/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1227902/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1133646/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1710798/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1893153/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:186368/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1852991/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1831346/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1784670/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1935754/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:177529/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1757068/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1745807/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1607800/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1649253/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1634371/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1620916/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1617990/67‑3 (MQ=37)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACCgtca                                     <  1:297991/67‑3 (MQ=25)

aTTCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTAAGgtca                                     <  1:1409616/67‑3 (MQ=25)

aTTCTGTTCGAACGTCCGGGGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1260569/67‑3 (MQ=255)

aTTCTATTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:2024685/67‑3 (MQ=37)

 ttCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:95703/66‑3 (MQ=37)

 ttCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:549985/66‑3 (MQ=37)

 ttCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1036705/66‑3 (MQ=37)

 ttCTGTTCGAACGTCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1042160/66‑3 (MQ=37)

          aaCGTCCGGTGCGTATTGGCGATACGGTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCg                           >  1:1448184/1‑67 (MQ=255)

              tCCGGTGCGCATAGGCGACACGGTAACCATTGGTAGCTTCTCGGGTACGgtca                                     <  1:1037586/53‑3 (MQ=25)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:915697/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:1023503/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:639879/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:630380/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:1369954/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:562101/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:1407980/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:466985/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:425113/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:398107/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:35460/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:2239528/1‑67 (MQ=255)

                                   ggTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAt  >  1:2059128/1‑67 (MQ=255)

ATTCTATTCGAACGTCCGGTGCGTATTGGCGATACGGTAACCATTGGTAGCTTCTCGGGGACGGTAAGTAAGATCCGTATTCGTGCGACAACGATTACCGAT  >  minE/317822‑317923

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A