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 |
294,369 |
A→G |
46.8% |
T471T (ACT→ACC) |
ybaE ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 294,369 | 0 | A | G | 46.8%
| 2.7
/ 52.0
| 62 | T471T (ACT→ACC) | ybaE | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (8/25); new base G (10/19); total (18/44) |
| Fisher's exact test for biased strand distribution p-value = 4.13e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTGCGTATGCTGGAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCTGTAG > minE/294304‑294431
|
tgtgCGTATGCTGGAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGta < 1:2684879/69‑1 (MQ=255)
tGCTGTAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGta < 1:695140/61‑1 (MQ=255)
cTGGAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTg > 1:1147521/1‑69 (MQ=255)
cTGGAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTg > 1:1786505/1‑69 (MQ=255)
cTGGAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTg > 1:2966935/1‑69 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:829067/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:2136946/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:2050213/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:2000987/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:238469/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:2512657/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:3015668/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:149627/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:3353926/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:527049/69‑1 (MQ=255)
tgtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:1081843/69‑1 (MQ=255)
gtgGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTg < 1:2106886/68‑1 (MQ=255)
cgcagcgcagCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGt > 1:1583666/1‑69 (MQ=255)
cgcagcgcagCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGt > 1:2978243/1‑69 (MQ=255)
cgcagcgcagCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGt > 1:1213075/1‑69 (MQ=255)
cgcagcgcagCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGt > 1:791407/1‑69 (MQ=255)
cgcagcgcagCCATTGCTCCAGAGTATATTCC‑GTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTc > 1:1613295/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCTTCATGAGGTCTGCgt > 1:2277312/1‑68 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:3427883/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:1039696/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:1274982/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:1741135/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:1639770/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:1371115/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:1014443/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgtg > 1:2110776/1‑69 (MQ=255)
cagcCATTGCTCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCgt > 1:1504140/1‑68 (MQ=255)
gcCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGtgtg < 1:1299863/69‑1 (MQ=255)
gcCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGtgtg < 1:2776142/69‑1 (MQ=255)
cATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGcc < 1:568416/69‑1 (MQ=255)
cATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGcc < 1:2395275/69‑1 (MQ=255)
cATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGcc < 1:2501793/69‑1 (MQ=255)
cATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGcc < 1:3258138/69‑1 (MQ=255)
aTTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGcc < 1:2254263/68‑1 (MQ=255)
ttGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCTg < 1:771855/69‑1 (MQ=255)
ttGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCTg < 1:2137601/69‑1 (MQ=255)
ttGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCTg < 1:991246/69‑1 (MQ=255)
ttGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCTg < 1:1759759/69‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:3432074/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2267809/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:859810/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:1863848/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:1139621/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2373665/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:1140869/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:1859948/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:56018/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2463125/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2915371/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:3410729/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:3363597/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2682341/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:1743437/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2797059/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:279792/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCAGTAg < 1:2920295/68‑1 (MQ=255)
tCCAGGGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGGCTGCGTGTGCCAGTAg < 1:2531727/68‑1 (MQ=255)
|
TGTGCGTATGCTGGAGCGTCGAAAACATGTGGCCACAGCGGATCGCAGCGCAGCCATTGCTCCAGAGTATATTCCGGTGCTTCGCCAATTAATCTGTCGCCCATCATGAGGTCTGCGTGTGCCTGTAG > minE/294304‑294431
|
| 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
