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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,826,243 |
C→A |
29.3% |
Q27H (CAG→CAT) |
hydN ← |
formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,826,243 | 0 | C | A | 29.3%
| 214.7
/ 68.1
| 109 | Q27H (CAG→CAT) | hydN | formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
| Reads supporting (aligned to +/- strand): ref base C (45/32); new base A (17/15); total (62/47) |
| Fisher's exact test for biased strand distribution p-value = 6.73e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.00e-01 |
Only 100 of 109 total aligned reads displayed.
ACACCTTTAATGACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGAT > minE/1826175‑1826311
|
acacCTTTAATGACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCt > 1:3577443/1‑70 (MQ=255)
acacCTTTAATGACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCt > 1:4775503/1‑70 (MQ=255)
tttAATGACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCtgat > 1:5689004/1‑68 (MQ=255)
aTGACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGaaa < 1:4873535/70‑1 (MQ=255)
aTGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCt > 1:5190936/1‑56 (MQ=255)
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACcacgcacg > 1:3602715/1‑71 (MQ=255)
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACcacgcacg > 1:4261569/1‑71 (MQ=255)
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACcacgcacg > 1:1488008/1‑71 (MQ=255)
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACg > 1:3988531/1‑71 (MQ=255)
cgcgGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGaaa > 1:4173205/1‑58 (MQ=255)
gTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATgaga < 1:5510429/52‑1 (MQ=255)
tAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTcac < 1:612773/71‑1 (MQ=255)
aaaaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCtgat < 1:5298269/45‑1 (MQ=255)
aaaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:4945897/71‑1 (MQ=255)
aaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGt < 1:3883524/71‑1 (MQ=255)
aaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTa > 1:2947631/1‑71 (MQ=255)
tttCCGGGGTCAGCGATGCACAGTCCTGATTTTCCt < 1:5361557/36‑1 (MQ=255)
tttCCGGGGTCAGCGATGCACAGTCCTGATTTTCCt < 1:4469653/36‑1 (MQ=255)
tttCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGt < 1:1239893/67‑1 (MQ=255)
ttCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACgg > 1:737801/1‑70 (MQ=255)
tCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAAcca > 1:96347/1‑45 (MQ=255)
tCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTcac > 1:1112419/1‑61 (MQ=255)
ggggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAAc > 1:5412158/1‑70 (MQ=255)
ggggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGTCAAcc < 1:3590309/71‑1 (MQ=255)
ggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCaa < 1:2852499/71‑1 (MQ=255)
cAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCa > 1:2704404/1‑42 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACTCACGCTACTACACAGGTACGGCAACCAATACa > 1:508002/1‑71 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTa > 1:3008819/1‑57 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTa > 1:3961321/1‑57 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCaa > 1:4462017/1‑67 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCaa > 1:4262611/1‑67 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATAc < 1:3326430/70‑1 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACa > 1:1007127/1‑71 (MQ=255)
gCGATGCACAGTCCTGATTTTACTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACa < 1:765359/70‑1 (MQ=255)
cGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAtt > 1:3295559/1‑71 (MQ=255)
cGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAtt < 1:1007139/71‑1 (MQ=255)
cGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAtt < 1:4151053/71‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTa > 1:1894282/1‑71 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:4132488/51‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:966424/51‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTa < 1:1973093/71‑1 (MQ=255)
gCACAGTCCTGATTTTGCTGATGAGAAACCACGCACGCTACTTCACAGGTa > 1:3382647/1‑51 (MQ=38)
gCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAg > 1:1436344/1‑48 (MQ=255)
gCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAg > 1:4692973/1‑48 (MQ=255)
cacaGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTAc > 1:2238228/1‑51 (MQ=255)
cacaGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTAc > 1:2244745/1‑51 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:3192130/68‑1 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:1102946/68‑1 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:4541114/68‑1 (MQ=255)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAgg < 1:1078367/43‑1 (MQ=12)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAgg < 1:2021130/43‑1 (MQ=12)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgca > 1:649410/3‑70 (MQ=255)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:2550428/68‑1 (MQ=255)
aGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:181518/45‑1 (MQ=255)
aGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:1912060/45‑1 (MQ=255)
gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:1449875/44‑1 (MQ=255)
gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:133643/1‑66 (MQ=255)
gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:4059290/1‑66 (MQ=255)
atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat > 1:1623890/2‑69 (MQ=255)
atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat > 1:4393609/2‑69 (MQ=255)
atCCTGAATCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat < 1:1165970/70‑3 (MQ=255)
tCCTGATTTTCCTTATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:3634267/49‑1 (MQ=255)
tCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:5149652/49‑1 (MQ=255)
tCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACg > 1:2740211/1‑47 (MQ=16)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:4335482/1‑71 (MQ=255)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:880577/1‑71 (MQ=255)
cTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAt > 1:1394768/1‑58 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:3370833/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:5233976/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:168476/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:5239275/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:5273999/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:4594554/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:4574773/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:386318/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAAccga < 1:2051226/53‑3 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAAccga < 1:1103046/53‑3 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACAt > 1:1124460/1‑58 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg > 1:1523518/1‑69 (MQ=255)
tGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt < 1:3074446/62‑1 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:3799546/1‑61 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:3681554/1‑61 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc > 1:5298515/1‑70 (MQ=255)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCa < 1:4620319/46‑1 (MQ=16)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCa < 1:4354397/46‑1 (MQ=16)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCa < 1:2131427/46‑1 (MQ=16)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc > 1:4850430/1‑70 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCa > 1:1634268/1‑45 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa > 1:5036326/1‑71 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa > 1:3737640/1‑70 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa < 1:2285167/70‑1 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAt > 1:2524375/1‑55 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg > 1:515577/1‑62 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:1264433/69‑1 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:602642/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc < 1:4796910/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc < 1:3267245/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCa < 1:3064599/70‑1 (MQ=255)
ttCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:2303942/41‑1 (MQ=255)
tCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgat > 1:4631497/1‑71 (MQ=255)
|
ACACCTTTAATGACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGAT > minE/1826175‑1826311
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
