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 I2 R1	721	0.0	1472758	54.8%	807071	56.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,118,808	G→A	P376P (CCC→CCT)	yghK ←	glycolate transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,118,808	0	G	A	98.7%	202.8 / ‑5.4	76	P376P (CCC→CCT)	yghK	glycolate transporter
Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (0/75); total (1/75)
Fisher's exact test for biased strand distribution p-value = 1.32e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01

TAGAGATAATCGCCGCAATAAAAATAGCGGTGCCGCCAGCCGAGAGGGGGTCGAATTTAAACACCGCATCCATTGGC > W3110S.gb/3118762‑3118838

tAGAGATAATCGCCGCAATAAAAATAGCGGTGCCGCCAGCCGAGAGGGGGTCGAATTTAAac                 >  1:249449/1‑62 (MQ=255)

               cAATAAAAATAGCGGTGCCTCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:763796/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGTGTCGAATTTAAACACCGCATCCATTGGc  <  1:167560/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTGGAATTTAAACACCGCATCCATTGGc  <  1:137572/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACATCGCATCCATTGGc  <  1:341249/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTgg   <  1:384739/61‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:390291/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:553921/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:506140/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:497868/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:495551/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:491472/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:459076/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:415521/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:412783/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:595549/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:340781/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:323449/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:323266/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:321505/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:70072/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:993313/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:971207/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:94216/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:926183/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:892743/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:861965/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:85553/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:734796/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:734688/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:582302/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:653361/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:642338/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:633156/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:631767/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:630744/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:607396/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:598305/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:290543/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1126139/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1006025/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1290240/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:124183/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1178410/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1163450/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1155025/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1145487/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1143307/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1297039/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1125078/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:111957/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1113607/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1096343/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1058044/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:100983/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1007482/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1332251/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:21724/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:20808/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:193539/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:15988/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1447872/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1446159/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:144066/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1410371/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1372949/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:13576/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1355331/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1355075/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1300215/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGAATCCATTGGc  <  1:227045/62‑1 (MQ=255)

               cAATAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGGCGAATTTAAACACCGCATCCATTGGc  <  1:6820/62‑1 (MQ=255)

               cAATAAAAATAGCGGCGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1446229/62‑1 (MQ=255)

                aaTAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:975078/61‑1 (MQ=255)

                  tAAAAATAGCGGTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:1195431/59‑1 (MQ=255)

                             gTGCCGCCAGCCGAGAGAGGGTCGAATTTAAACACCGCATCCATTGGc  <  1:277279/48‑1 (MQ=255)

TAGAGATAATCGCCGCAATAAAAATAGCGGTGCCGCCAGCCGAGAGGGGGTCGAATTTAAACACCGCATCCATTGGC > W3110S.gb/3118762‑3118838

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A