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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
835,007 |
T→A |
15.9% |
V1155V (GTT→GTA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 835,007 | 0 | T | A | 15.9%
| 236.9
/ 32.0
| 94 | V1155V (GTT→GTA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (29/50); new base A (7/8); total (36/58) |
| Fisher's exact test for biased strand distribution p-value = 5.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGAAATTACC > minE/834938‑835076
|
tAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTc < 1:1020665/71‑1 (MQ=255)
tAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTc < 1:2633304/71‑1 (MQ=255)
aCGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTcc < 1:1988737/70‑1 (MQ=255)
cGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCgg < 1:422534/71‑1 (MQ=255)
tGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGa > 1:120265/1‑71 (MQ=255)
aaGTCTTCAACAGCAACGGTGCACTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGc < 1:2488119/61‑1 (MQ=255)
aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCgg < 1:2297830/59‑1 (MQ=255)
aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa < 1:992511/71‑1 (MQ=255)
aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa < 1:2098452/71‑1 (MQ=255)
aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa < 1:3534834/71‑1 (MQ=255)
aGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCa < 1:3099332/71‑1 (MQ=255)
gtattCAACGCCAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCat < 1:2917968/68‑1 (MQ=255)
gTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat < 1:1371996/71‑1 (MQ=255)
gTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat > 1:3940907/1‑71 (MQ=255)
ttCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTcc > 1:2716712/1‑53 (MQ=255)
ttCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgat > 1:2106827/1‑71 (MQ=255)
ttCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat < 1:1572509/68‑1 (MQ=255)
ttCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCat < 1:1945452/68‑1 (MQ=255)
atCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatga < 1:755669/69‑1 (MQ=255)
tCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg > 1:2692629/1‑71 (MQ=255)
cAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg < 1:2265125/70‑1 (MQ=255)
cAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg < 1:2167323/70‑1 (MQ=255)
cAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg < 1:1467150/70‑1 (MQ=255)
cAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatga < 1:1150338/68‑1 (MQ=255)
aCAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTAc < 1:2522119/71‑1 (MQ=255)
cAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTAcc < 1:465427/71‑1 (MQ=255)
cAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTAc > 1:1048619/1‑70 (MQ=255)
cAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTAc > 1:3352417/1‑70 (MQ=255)
cAACGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAc < 1:1064500/70‑1 (MQ=255)
aaCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAcgc > 1:2375329/1‑71 (MQ=255)
aaCGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAcgc < 1:2197837/71‑1 (MQ=255)
aCGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgcg < 1:2548474/71‑1 (MQ=255)
aCGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgcg < 1:2606534/71‑1 (MQ=255)
cGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgcg < 1:999822/70‑1 (MQ=255)
cGGCGCGCTGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCAcgcc > 1:2651998/1‑69 (MQ=255)
tGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAgg < 1:1451599/71‑1 (MQ=255)
gCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAgg > 1:2691125/1‑70 (MQ=255)
ctctGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCTCAGGa < 1:2769790/70‑1 (MQ=255)
ctctGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGa < 1:3419235/70‑1 (MQ=255)
ctGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACg > 1:2245694/1‑71 (MQ=255)
ctGACTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCatg < 1:1404635/51‑1 (MQ=255)
tGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACg > 1:2452496/1‑70 (MQ=255)
aCTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTa < 1:3343759/70‑1 (MQ=255)
aCTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTAt < 1:2340125/71‑1 (MQ=255)
aCTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTAt < 1:3157499/71‑1 (MQ=255)
aCTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAt > 1:2705619/1‑71 (MQ=255)
cTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAgg > 1:3412902/1‑37 (MQ=255)
cTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATc < 1:3439265/71‑1 (MQ=255)
cTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAtt < 1:2391046/71‑2 (MQ=255)
cTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAtt < 1:1094271/71‑2 (MQ=255)
cTGCCCGCGCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACGCAt > 1:1391483/1‑70 (MQ=255)
tGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCg > 1:3326240/1‑71 (MQ=255)
tGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCg > 1:1554806/1‑71 (MQ=255)
cccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt < 1:3282058/71‑1 (MQ=255)
cccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt < 1:3189789/71‑1 (MQ=255)
cccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGtt < 1:3185670/71‑1 (MQ=255)
ccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTa < 1:2400344/71‑1 (MQ=255)
ccGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTa < 1:1291355/71‑1 (MQ=255)
cGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatg < 1:3121471/42‑1 (MQ=255)
gTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAc > 1:243385/1‑71 (MQ=255)
tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCatgatg < 1:2912819/43‑1 (MQ=255)
tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTa < 1:71734/45‑1 (MQ=255)
tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgcg < 1:1470713/52‑1 (MQ=255)
tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcc > 1:218630/1‑71 (MQ=255)
tGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcc > 1:3059265/1‑71 (MQ=255)
cgCGGTGGTCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGaa > 1:3400297/2‑58 (MQ=255)
cGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctg < 1:104930/71‑1 (MQ=255)
cGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctg > 1:3925061/1‑71 (MQ=255)
ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCAcgcg < 1:1695276/47‑1 (MQ=255)
ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGt < 1:2749344/56‑1 (MQ=255)
ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGt < 1:1402295/56‑1 (MQ=255)
ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTa > 1:1742048/1‑57 (MQ=255)
ttGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAAcctgcc < 1:456491/70‑1 (MQ=255)
gTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCa > 1:2524787/1‑47 (MQ=255)
tCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGt < 1:2091218/71‑1 (MQ=255)
tCAGCCAACGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACgca < 1:3557089/54‑3 (MQ=16)
agccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTc > 1:1489476/1‑71 (MQ=255)
agccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTc > 1:3273817/1‑71 (MQ=255)
agccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTc > 1:3278299/1‑71 (MQ=255)
agccaacGTGTACCGCCGGGCATGACCATGATGTATCAcgccc > 1:50181/1‑41 (MQ=12)
ggcagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTa < 1:1995826/55‑1 (MQ=255)
gccaacGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAACgca < 1:1784727/51‑3 (MQ=16)
ccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCgg < 1:835364/71‑1 (MQ=255)
ccagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCg > 1:525714/1‑70 (MQ=255)
cagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGa < 1:3403729/71‑1 (MQ=255)
cagcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGa < 1:3941251/71‑1 (MQ=255)
agcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAAc > 1:2446594/1‑45 (MQ=255)
agcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCGTGGTTCGGa > 1:3309073/1‑70 (MQ=255)
agcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGa > 1:2686197/1‑70 (MQ=255)
gcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGaaa > 1:1025423/1‑71 (MQ=255)
gcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGaaa > 1:452458/1‑71 (MQ=255)
gcGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGaa > 1:2592330/1‑70 (MQ=255)
acGTGTACCGCCGGGCATGACCATGATGTATCACGCCCAGGAAc > 1:341739/2‑44 (MQ=12)
tgtTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCg < 1:1959701/47‑1 (MQ=255)
ttCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGAAATTAcc < 1:3672553/71‑1 (MQ=255)
tCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGAAATTAcc > 1:1647102/1‑70 (MQ=255)
|
TAACGACTGGATTGAAGTCTTCAACAGCAACGGTGCTCTGACTGCCCGTGCGGTTGTCAGCCAGCGTGTTCCGGCAGGGATGACCATGATGTACCACGCGCAGGAACGTATCGTTAACCTGCCTGGTTCGGAAATTACC > minE/834938‑835076
|
| 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
