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 |
1,202,140 |
C→A |
21.8% |
T431T (ACC→ACA) |
sdaA → |
L‑serine deaminase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,202,140 | 0 | C | A | 21.8%
| 289.3
/ 46.1
| 110 | T431T (ACC→ACA) | sdaA | L‑serine deaminase I |
| Reads supporting (aligned to +/- strand): ref base C (37/49); new base A (9/15); total (46/64) |
| Fisher's exact test for biased strand distribution p-value = 8.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
Only 100 of 110 total aligned reads displayed.
GATGGCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAGTGT > minE/1202071‑1202206
|
gATGGCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCg > 1:3287383/1‑71 (MQ=255)
ggCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGt > 1:1703545/1‑70 (MQ=255)
gCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTa < 1:374468/70‑1 (MQ=255)
gCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTa < 1:602788/70‑1 (MQ=255)
gCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTa < 1:5028452/70‑1 (MQ=255)
gctGCGCCGTACCAGCGAGCCGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTaaag < 1:3752269/70‑3 (MQ=12)
ctGCGCCGTACCAGCGAGCCGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTaa > 1:1338565/1‑68 (MQ=16)
ctGCGCCGTACCAGCGAGCCGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTaa > 1:4658923/1‑68 (MQ=16)
ctGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGa > 1:5130055/1‑71 (MQ=255)
cgccgtACCAGCGAGCCGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGata < 1:1741280/70‑3 (MQ=9)
cgccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACAt < 1:5233609/71‑1 (MQ=255)
gccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATg < 1:2945933/71‑1 (MQ=255)
gccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATg < 1:3386637/71‑1 (MQ=255)
gccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATg < 1:1053086/71‑1 (MQ=255)
ccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa < 1:485031/71‑1 (MQ=255)
ccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa < 1:3133687/71‑1 (MQ=255)
ccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa < 1:2237289/71‑1 (MQ=255)
ccgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa < 1:740483/71‑1 (MQ=255)
cgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATg < 1:122387/69‑1 (MQ=255)
cgcACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGaa > 1:2482802/1‑71 (MQ=255)
ccAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGcc < 1:1873247/71‑1 (MQ=255)
ccAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGcc < 1:2282120/71‑1 (MQ=255)
cAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGcc > 1:4645873/1‑70 (MQ=255)
gTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCaaa < 1:5386880/71‑1 (MQ=255)
gTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCaaa < 1:2388045/71‑1 (MQ=255)
tGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAAt < 1:3202003/71‑1 (MQ=255)
gCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATa > 1:1085806/1‑71 (MQ=255)
cACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATa < 1:588897/70‑1 (MQ=255)
gccGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGATATg < 1:5078341/57‑1 (MQ=2)
gccGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGATATg < 1:3728018/57‑1 (MQ=2)
gccGCGCGTCTGCCTCGATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGATATg < 1:4211468/57‑1 (MQ=2)
ccGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa > 1:5550167/1‑58 (MQ=255)
ccGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa > 1:852721/1‑58 (MQ=255)
ccGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGa > 1:2673068/1‑58 (MQ=255)
ccGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCa < 1:2307687/64‑1 (MQ=255)
cgcgTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACcgcg > 1:2217578/1‑70 (MQ=255)
cgcgTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACcgcg > 1:3409604/1‑70 (MQ=255)
cgcgTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGa < 1:4482551/71‑1 (MQ=255)
cgcgTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGa < 1:4411502/71‑1 (MQ=255)
cgcgTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGa < 1:3744168/71‑1 (MQ=255)
tctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACcgc < 1:5520954/65‑1 (MQ=255)
ctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAg < 1:4255399/43‑1 (MQ=255)
ctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGaa > 1:3029786/1‑51 (MQ=255)
ctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGaa > 1:222754/1‑51 (MQ=255)
ctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCa < 1:584898/56‑1 (MQ=255)
ctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCa < 1:453443/56‑1 (MQ=255)
ctcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCa < 1:3526690/56‑1 (MQ=255)
tcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAgg < 1:5378160/43‑1 (MQ=255)
tcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCaaa > 1:3928558/1‑57 (MQ=255)
tcGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCaa > 1:2460716/1‑56 (MQ=255)
cGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAgg < 1:1468633/42‑1 (MQ=255)
cGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGa > 1:5576121/1‑43 (MQ=255)
cGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCa > 1:4829874/1‑71 (MQ=255)
gCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGa < 1:438422/42‑1 (MQ=255)
cTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCaaa > 1:2878054/1‑54 (MQ=255)
cTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcg < 1:466880/71‑1 (MQ=255)
cTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcg < 1:3343172/71‑1 (MQ=255)
cTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcg < 1:4143883/71‑1 (MQ=255)
cTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcg > 1:5574699/1‑71 (MQ=255)
cTGGATAAGGGCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcg < 1:2006494/71‑1 (MQ=255)
tcgATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTcgc > 1:4221071/3‑71 (MQ=9)
tcgATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTcgc > 1:1473167/3‑71 (MQ=9)
ggATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCa < 1:2158246/50‑1 (MQ=255)
cgATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGatat > 1:612330/2‑42 (MQ=16)
cgATAAAGTTATCGAAACCATGTACGAAACAGGTAAAGatat > 1:1029108/2‑42 (MQ=16)
gATAAAGTTATCGAAACCATGTACGAAACAGGTaaa < 1:69973/36‑2 (MQ=16)
tAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCggtg < 1:2025406/71‑1 (MQ=255)
aGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcgcg < 1:3738303/66‑1 (MQ=255)
aGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCggtgg < 1:5193472/70‑1 (MQ=255)
gttaTCGAAACCATGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCt < 1:4544821/68‑1 (MQ=12)
tCATCGAAACGATGTAAGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCAcg < 1:5067371/61‑1 (MQ=255)
cATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTgg > 1:1888669/1‑71 (MQ=255)
aTCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGc < 1:3744487/71‑1 (MQ=255)
tCGAAACCATGTACGAAACAGGTAAAGATATGAAc < 1:1564200/35‑1 (MQ=9)
cGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGaa < 1:5697285/49‑1 (MQ=255)
cGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCaa > 1:759792/1‑71 (MQ=255)
cGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCaa > 1:2265199/1‑71 (MQ=255)
cGAAACGATGTACGAAACCGGTAAGGACATGAACGACAAATACCGCGAAACCTCACGCGGTGGTCTGGCaa > 1:5452808/1‑71 (MQ=255)
gAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCaa > 1:160257/1‑70 (MQ=255)
gAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAAt > 1:3277154/1‑71 (MQ=255)
gAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAAt > 1:5074494/1‑71 (MQ=255)
gAAACCATGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCTGGCAAt < 1:4977722/71‑1 (MQ=17)
aaaCGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCgg > 1:2875460/1‑58 (MQ=255)
aaCCATGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCTGGCAAtga < 1:3170059/71‑3 (MQ=12)
ccaTGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCTGGCAATGaag < 1:2610426/69‑2 (MQ=12)
caTGTACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCTGGCAATGaaga < 1:761970/70‑3 (MQ=12)
tGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGaa < 1:1006210/41‑1 (MQ=255)
tGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTc < 1:3174331/71‑1 (MQ=255)
tACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCgg > 1:499273/1‑50 (MQ=17)
tACGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCTGGCAAtg < 1:1496302/63‑2 (MQ=17)
cGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCaaa > 1:1115203/1‑64 (MQ=255)
cGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCaaa > 1:2100008/1‑64 (MQ=255)
cGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgt > 1:1861590/1‑71 (MQ=255)
cGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgt < 1:5020958/71‑1 (MQ=255)
cGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgt > 1:48996/1‑71 (MQ=255)
cGAAACAGGTAAAGATATGAACGCCAAGTACCGCGAAACCTCTCGCGGCGGCCTGGCaa > 1:5320277/1‑59 (MQ=17)
aaaCCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgtgt < 1:3417817/71‑1 (MQ=255)
aaaCCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgtgt < 1:2329887/71‑1 (MQ=255)
aaaCCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgtgt < 1:2330294/71‑1 (MQ=255)
aaaCCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAgtgt > 1:2959377/1‑71 (MQ=255)
|
GATGGCTCTGCGCCGCACCAGTGCACCGCGCGTCTCGCTGGATAAGGTCATCGAAACGATGTACGAAACCGGTAAGGACATGAACGCCAAATACCGCGAAACCTCACGCGGTGGTCTGGCAATCAAAGTCCAGTGT > minE/1202071‑1202206
|
| 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
