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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,141,409 |
C→T |
12.6% |
A79A (GCG→GCA) |
hybC ← |
hydrogenase 2, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,141,409 | 0 | C | T | 12.6%
| 266.7
/ 24.1
| 95 | A79A (GCG→GCA) | hybC | hydrogenase 2, large subunit |
| Reads supporting (aligned to +/- strand): ref base C (46/37); new base T (6/6); total (52/43) |
| Fisher's exact test for biased strand distribution p-value = 7.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
ATGCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGCAC > W3110S.gb/3141340‑3141477
|
aTGCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAgcg < 1:3068077/71‑1 (MQ=255)
tGCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAgtgc < 1:1756499/71‑1 (MQ=255)
cGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCAc > 1:2382887/1‑71 (MQ=255)
cGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCAc > 1:69265/1‑71 (MQ=255)
gtggtgTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACt < 1:3958026/71‑1 (MQ=255)
gtgtGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTc < 1:4387133/71‑1 (MQ=255)
gtgtGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTc < 1:4168451/71‑1 (MQ=255)
gtgtGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTc < 1:3355649/71‑1 (MQ=255)
tgCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTg > 1:3671260/1‑70 (MQ=255)
tgCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGc > 1:2610042/1‑71 (MQ=255)
cgcAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCg > 1:4600842/1‑71 (MQ=255)
cgcAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGcc > 1:3225444/1‑70 (MQ=255)
cgcAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCg > 1:1489630/1‑71 (MQ=255)
cgcAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCg > 1:3855898/1‑71 (MQ=255)
ccAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTg < 1:2412401/63‑1 (MQ=255)
cAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGaa > 1:4087333/1‑71 (MQ=255)
cAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGa < 1:2233004/70‑1 (MQ=255)
aGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGcc > 1:4325088/1‑63 (MQ=255)
aGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAAc > 1:664196/1‑71 (MQ=255)
aaTGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg < 1:3149561/71‑1 (MQ=255)
aaTGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACg > 1:196520/1‑70 (MQ=255)
atgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGcc > 1:2953691/1‑60 (MQ=255)
atgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGcc > 1:2921319/1‑60 (MQ=255)
atgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:422513/1‑70 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCATCGCACTTTCTGCCGCACGAACgg > 1:4642513/1‑69 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:2981939/1‑69 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:1000434/1‑69 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:3279507/71‑1 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:2375389/71‑1 (MQ=255)
tgatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:176875/71‑1 (MQ=255)
gatgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACgg > 1:28657/1‑68 (MQ=255)
atgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAgagc > 1:1999933/1‑47 (MQ=255)
atgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACttt > 1:3501417/1‑52 (MQ=255)
atgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACttt > 1:907104/1‑52 (MQ=255)
atgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGa > 1:3806878/1‑71 (MQ=255)
atgTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGa < 1:2446318/71‑1 (MQ=255)
ttACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:3468759/66‑1 (MQ=255)
aCGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACt > 1:3312786/1‑45 (MQ=255)
cGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAgcgc > 1:4513776/1‑71 (MQ=255)
gATGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGt < 1:2218711/71‑1 (MQ=255)
gATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGt < 1:2135509/71‑1 (MQ=255)
aTGTATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTg < 1:3318218/71‑1 (MQ=255)
tGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACg < 1:868928/52‑1 (MQ=255)
tGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGt < 1:2988867/69‑1 (MQ=255)
gTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACt > 1:3540421/1‑39 (MQ=255)
gTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGa < 1:802615/60‑1 (MQ=255)
tATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACg > 1:3673716/1‑50 (MQ=255)
tATTGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACg > 1:328522/1‑50 (MQ=255)
aTTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTg > 1:1472606/1‑71 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg < 1:3810600/71‑1 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg < 1:4096009/71‑1 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCa > 1:3364863/1‑46 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGaa < 1:2247739/55‑1 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGt < 1:1051011/65‑1 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:158492/1‑71 (MQ=255)
ttGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg < 1:3492300/71‑1 (MQ=255)
tGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGcgcg > 1:2646189/1‑63 (MQ=255)
tGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGcgcg > 1:699328/1‑63 (MQ=255)
gcgcGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAg > 1:828054/1‑66 (MQ=255)
gcgcGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:4058378/1‑69 (MQ=255)
gcgcGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:1353090/1‑69 (MQ=255)
gcgcGTTAACCGGAACGTCGATATCCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAg > 1:1749274/1‑66 (MQ=255)
cgcgTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgta < 1:3197250/70‑1 (MQ=255)
gTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTAc < 1:523455/71‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgtagta < 1:4535210/69‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACa < 1:2873408/71‑1 (MQ=255)
ttAACCGGAACGTCGATATTCAGCGCACTTTCTGACGCACGAACGGAAGACAGCGCGTGAGTGgt < 1:3645211/65‑1 (MQ=255)
tAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGaa > 1:148393/1‑42 (MQ=255)
aaCCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGaa > 1:937665/1‑41 (MQ=255)
aaCCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACAt < 1:4449104/70‑1 (MQ=255)
aaCCGGAACGTCGATATTCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATa > 1:1031575/1‑71 (MQ=255)
aaCCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACAt < 1:3690190/70‑1 (MQ=255)
aaCCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATa > 1:3269936/1‑71 (MQ=255)
aaCCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATa > 1:3264396/1‑71 (MQ=255)
ccGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGaa > 1:2527896/1‑39 (MQ=255)
ccGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGaa > 1:4120282/1‑39 (MQ=255)
ccGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAg < 1:1680862/57‑1 (MQ=255)
ccGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgt < 1:3193595/61‑1 (MQ=255)
cGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTg < 1:3429517/54‑1 (MQ=255)
cGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGc < 1:1000796/71‑1 (MQ=255)
ggAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTg < 1:1326966/53‑1 (MQ=255)
ggAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGc > 1:1073989/1‑70 (MQ=255)
ggAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGc > 1:3269958/1‑70 (MQ=255)
aCGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACa > 1:999912/1‑43 (MQ=255)
aCGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGt > 1:72254/1‑49 (MQ=255)
gTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGa < 1:4035859/71‑1 (MQ=255)
tCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgtagta < 1:1826006/57‑1 (MQ=255)
gATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGa > 1:4070688/1‑46 (MQ=255)
gATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgtag < 1:788438/53‑1 (MQ=255)
atatTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgt < 1:868900/50‑1 (MQ=255)
ttCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAg < 1:2120232/43‑1 (MQ=255)
ttCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGa < 1:1925730/64‑1 (MQ=255)
tCAGTGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTgg > 1:2760775/1‑45 (MQ=255)
cAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgta > 1:3644145/1‑46 (MQ=255)
cAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACa > 1:3134581/1‑51 (MQ=255)
cAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGca > 1:2589706/1‑71 (MQ=255)
aGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGcac < 1:2571726/71‑1 (MQ=255)
aGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGcac < 1:1770267/71‑1 (MQ=255)
cgcACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGgtagt < 1:3021071/45‑1 (MQ=255)
cgcACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCcaca < 1:2578560/57‑1 (MQ=255)
|
ATGCGTGGTGTGCGCAGCCAGAATGATGTTACGGATGTATTGCGCGTTAACCGGAACGTCGATATTCAGCGCACTTTCTGCCGCACGAACGGAAGACAGCGCGTGAGTGGTAGTACATACGCCACAGATACGTTGCAC > W3110S.gb/3141340‑3141477
|
| 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
