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
A5 F28 I3 R2	489	0.0	1652083	58.3%	963164	55.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,657,847	C→T	A78A (GCG→GCA)	wzyE ←	predicted Wzy protein involved in ECA polysaccharide chain elongation

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,657,847	0	C	T	91.5%	362.5 / 14.4	153	A78A (GCG→GCA)	wzyE	predicted Wzy protein involved in ECA polysaccharide chain elongation
Reads supporting (aligned to +/- strand): ref base C (13/0); new base T (0/140); total (13/140)
Fisher's exact test for biased strand distribution p-value = 4.18e-19
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.70e-01

Only 100 of 153 total aligned reads displayed.

TGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAC > W3110S.gb/3657813‑3657894

tttAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:885558/40‑1 (MQ=39)

tGTAGGTGACATAGTAATCCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:690441/42‑1 (MQ=38)

tGTAGGTGACATAGTAAACCGCTTAGAAGCAGCCTGCAGaaa                                          <  1:1600454/42‑1 (MQ=38)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:43518/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:601416/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:55792/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:552730/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:532364/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:529081/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:513404/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:495954/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:493457/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:475862/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:472749/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:464596/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:616484/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:41913/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:369806/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:369108/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:36528/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:341764/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:330623/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:318592/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:30635/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:305886/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1042361/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:776728/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:971642/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:950112/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:941206/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:91749/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:913275/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:912398/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:882871/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:84650/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:824968/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:798778/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:797986/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:616166/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:774273/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:749068/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:721784/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:718446/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:698789/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:680337/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:671248/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:659851/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:645544/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:287298/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:117171/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1366447/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:26691/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1334881/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1323323/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1298680/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1294212/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1261323/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:125562/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1228026/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1192335/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1190845/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1347353/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1165824/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1148281/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1140927/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1140507/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1126334/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1090760/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1083878/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1061489/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1058155/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1042449/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1547542/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1608384/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1603945/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:159137/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1627037/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1588770/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1631372/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1569135/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1563619/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:155184/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:152819/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:148161/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1478128/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:182386/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:192509/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1432809/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:208548/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:261354/42‑1 (MQ=255)

tGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1400466/42‑1 (MQ=255)

 gTAGGTGACATAGTAAACCGCGTAGAAGCAGCCTGCAGaaa                                          <  1:1412333/41‑1 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:404990/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:1108103/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:1183136/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:1319272/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:1437896/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:551162/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGAGGCGCGACACCAAc  >  1:951888/1‑62 (MQ=255)

                    gcgTAGAAGCAGCCCGCAGAAAACAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAc  >  1:133897/1‑62 (MQ=255)

TGTAGGTGACATAGTAAACCGCGTAGAAGCAGCCCGCAGAAAGCAACGCCTGCAACAAGATTTCTGGCGGCGCGACACCAAC > W3110S.gb/3657813‑3657894

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