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 |
1,826,261 |
C→A |
37.5% |
A21A (GCG→GCT) |
hydN ← |
formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,826,261 | 0 | C | A | 37.5%
| 208.7
/ 125.5
| 149 | A21A (GCG→GCT) | hydN | formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
| Reads supporting (aligned to +/- strand): ref base C (56/37); new base A (31/25); total (87/62) |
| Fisher's exact test for biased strand distribution p-value = 6.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 154 total aligned reads displayed.
GATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTC > minE/1826192‑1826330
|
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACcacgcacg > 1:3602715/1‑71 (MQ=255)
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACg > 1:3988531/1‑71 (MQ=255)
tAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTcac < 1:612773/71‑1 (MQ=255)
aaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGt < 1:3883524/71‑1 (MQ=255)
aaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTa > 1:2947631/1‑71 (MQ=255)
ttCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACgg > 1:737801/1‑70 (MQ=255)
tCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTcac > 1:1112419/1‑61 (MQ=255)
ggggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAAc > 1:5412158/1‑70 (MQ=255)
ggggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGTCAAcc < 1:3590309/71‑1 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCaa > 1:4262611/1‑67 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCaa > 1:4462017/1‑67 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATAc < 1:3326430/70‑1 (MQ=255)
aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACa > 1:1007127/1‑71 (MQ=255)
cGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAtt < 1:1007139/71‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTa > 1:1894282/1‑71 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:4132488/51‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTa < 1:1973093/71‑1 (MQ=255)
tGCACAGTCCTGATTTTCCTGATGAGAAACCacgcacgc < 1:1415566/39‑1 (MQ=255)
gCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAg > 1:4513815/1‑48 (MQ=255)
gCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAg > 1:4692973/1‑48 (MQ=255)
cacaGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTAc > 1:2244745/1‑51 (MQ=255)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAgg < 1:1078367/43‑1 (MQ=12)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgca > 1:649410/3‑70 (MQ=255)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:2550428/68‑1 (MQ=255)
gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg < 1:1449875/44‑1 (MQ=255)
gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:4059290/1‑66 (MQ=255)
atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat > 1:4393609/2‑69 (MQ=255)
atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat > 1:1623890/2‑69 (MQ=255)
atCCTGAATCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat < 1:1165970/70‑3 (MQ=255)
tCCTGATTTTCCTTATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:3634267/49‑1 (MQ=255)
tCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:1982038/49‑1 (MQ=255)
tCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:5149652/49‑1 (MQ=255)
tCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACg > 1:2740211/1‑47 (MQ=16)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:880577/1‑71 (MQ=255)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:3502090/1‑71 (MQ=255)
cTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAt > 1:1394768/1‑58 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:3370833/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:168476/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:386318/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:4574773/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:5239275/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTa > 1:5233976/1‑43 (MQ=12)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAAccga < 1:1103046/53‑3 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAAccga < 1:2051226/53‑3 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACAt > 1:2844205/1‑58 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACAt > 1:4947987/1‑58 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg > 1:1523518/1‑69 (MQ=255)
tGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt < 1:3074446/62‑1 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:3681554/1‑61 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc > 1:5298515/1‑70 (MQ=255)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCa < 1:4354397/46‑1 (MQ=16)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCa < 1:4620319/46‑1 (MQ=16)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc > 1:4850430/1‑70 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa > 1:5036326/1‑71 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa > 1:3737640/1‑70 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACAt > 1:2524375/1‑55 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg > 1:515577/1‑62 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:1264433/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc < 1:3267245/69‑1 (MQ=255)
ttCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGc < 1:2303942/41‑1 (MQ=255)
atgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAataa < 1:2683741/67‑3 (MQ=255)
gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac > 1:1356230/1‑70 (MQ=255)
gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac > 1:3092677/1‑70 (MQ=255)
atgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACAttt > 1:1321704/1‑48 (MQ=19)
atgaGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc > 1:4810690/1‑71 (MQ=255)
tgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACg > 1:3193442/1‑71 (MQ=255)
gagaAACCGCGCACGCTACTTCACAGGTACGGCaa > 1:1746774/1‑35 (MQ=255)
gagaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgat > 1:4546756/1‑64 (MQ=255)
gagaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACgg > 1:4285982/1‑71 (MQ=255)
agaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt > 1:4197328/1‑71 (MQ=255)
gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt > 1:3715697/1‑70 (MQ=255)
gaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaa > 1:113282/1‑65 (MQ=255)
gaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGtt < 1:4195368/71‑1 (MQ=255)
aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtc < 1:1646897/71‑1 (MQ=255)
aaaCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg < 1:5528802/54‑1 (MQ=255)
actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat < 1:846580/68‑1 (MQ=255)
actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat > 1:1878049/4‑71 (MQ=255)
aCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa > 1:1485272/1‑54 (MQ=255)
tgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAat < 1:863635/53‑1 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata > 1:685906/1‑56 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataat > 1:4456837/1‑56 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatgat > 1:3055161/1‑68 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACAATTCGTCGCATCCGCAATAATAAACCgg > 1:2367061/1‑63 (MQ=255)
acgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcatca > 1:788160/2‑70 (MQ=255)
acgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcatca > 1:4714803/2‑70 (MQ=255)
acgcACGCTACTTCACAGGTACGGCAACCAATACAATTACTCCCGTCAGCa > 1:1079576/2‑51 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc < 1:975174/43‑1 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc < 1:1759731/43‑1 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc < 1:3769048/43‑1 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt > 1:2429850/1‑45 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa > 1:2286834/1‑59 (MQ=255)
cgcAAGCCACTTCACAGGTACGGCAACCGATACAtttc > 1:46261/1‑37 (MQ=25)
cgcAAGCCACTTCACAGGTACGGCAACCGATACAtttc > 1:4546304/1‑37 (MQ=25)
cgcAAGCCACTTCACAGGTACGGCAACCGATACAtttc > 1:2159770/1‑37 (MQ=25)
gcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgatg < 1:227899/55‑1 (MQ=255)
gcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataataa < 1:3399526/56‑3 (MQ=255)
gcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataataa < 1:2872217/56‑3 (MQ=255)
cACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt < 1:3055557/71‑1 (MQ=255)
aCGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtc < 1:4349942/71‑1 (MQ=255)
cGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAAtgatga < 1:220667/53‑1 (MQ=255)
|
GATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTC > minE/1826192‑1826330
|
| 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
