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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
252,556 |
A→G |
36.9% |
S525G (AGT→GGT) |
malZ → |
maltodextrin glucosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 252,556 | 0 | A | G | 36.9%
| 39.5
/ 44.5
| 73 | S525G (AGT→GGT) | malZ | maltodextrin glucosidase |
| Reads supporting (aligned to +/- strand): ref base A (30/16); new base G (19/8); total (49/24) |
| Fisher's exact test for biased strand distribution p-value = 7.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
TGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATA > minE/252494‑252604
|
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:959138/69‑1 (MQ=255)
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:886743/69‑1 (MQ=255)
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:3406420/69‑1 (MQ=255)
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:1340136/69‑1 (MQ=255)
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:179356/69‑1 (MQ=255)
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:1526477/69‑1 (MQ=255)
tGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAgg < 1:1460238/69‑1 (MQ=255)
cAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGt < 1:46354/69‑1 (MQ=255)
cAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGt < 1:3199187/69‑1 (MQ=255)
cAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGt < 1:244703/69‑1 (MQ=255)
tACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATgg > 1:2490856/1‑69 (MQ=255)
tACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATgg > 1:2576878/1‑69 (MQ=255)
tACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATgg > 1:1562220/1‑69 (MQ=255)
tACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATgg > 1:1398658/1‑69 (MQ=255)
cGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcg > 1:2485216/1‑69 (MQ=255)
cGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcg < 1:299191/69‑1 (MQ=255)
cGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcg > 1:3017812/1‑69 (MQ=255)
cGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcg > 1:3154953/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:1125018/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:3117341/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:2010498/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:87045/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:832853/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:1367298/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:1711662/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcggc > 1:464509/1‑69 (MQ=255)
gCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATggcgg > 1:3041790/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTggcggc > 1:3249120/1‑67 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTgg > 1:263061/1‑63 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:3085536/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:649614/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:3171573/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:331678/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:2954152/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:1219385/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:282264/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:2804174/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:2726916/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:1212644/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:1311457/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:1428314/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:1529389/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:1940176/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:2282454/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:2394072/1‑68 (MQ=255)
gTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCt > 1:2442256/1‑68 (MQ=255)
cgcgCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:2697389/68‑1 (MQ=255)
cgcgCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:136173/68‑1 (MQ=255)
cgcgCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:2760026/68‑1 (MQ=255)
cgcgCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:2165796/68‑1 (MQ=255)
cgcgCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:3281756/68‑1 (MQ=255)
cgcgCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCATCGTGGCGGCTGTCAgg < 1:1037326/68‑1 (MQ=255)
tACCAGCGAATGATTGCGCTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:911256/61‑1 (MQ=255)
aTGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGAt < 1:1239780/69‑1 (MQ=255)
aTGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGAt < 1:1136010/69‑1 (MQ=255)
aTGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGAt < 1:1928150/69‑1 (MQ=255)
aTGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGAt < 1:1350938/69‑1 (MQ=255)
aTGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGAt < 1:2449032/69‑1 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCt > 1:3360673/1‑55 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTAt > 1:622308/1‑59 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:1437742/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:1381314/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:338559/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:737284/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:638694/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:136085/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:2002061/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:2125692/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:3022539/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:2878361/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGATGTCAGGTGCTGTATGCGGAAGATa > 1:174774/1‑69 (MQ=255)
tGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGAGGCTGTCAGGTGCTGTATGCGGAAGATa > 1:2068317/1‑69 (MQ=255)
gcgcTGCGTAAGAAAGGTCAGGCGTTGCGTCGTGGCGGCTGTCAgg < 1:745542/46‑1 (MQ=37)
|
TGGAAAAGCAGGATACGGCGTTATTCGCGCTGTACCAGCGAATGATTGCGCTGCGTAAGAAAAGTCAGGCGCTACGTCATGGCGGCTGTCAGGTGCTGTATGCGGAAGATA > minE/252494‑252604
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
