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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,501,821 |
A→G |
42.8% |
D269D (GAT→GAC) |
lrhA ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,501,821 | 0 | A | G | 42.8%
| 21.3
/ 65.1
| 84 | D269D (GAT→GAC) | lrhA | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (20/28); new base G (13/23); total (33/51) |
| Fisher's exact test for biased strand distribution p-value = 6.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01 |
GCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACA > minE/1501754‑1501884
|
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGa > 1:3364785/1‑68 (MQ=255)
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGAt > 1:108943/1‑69 (MQ=255)
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGAt > 1:1173902/1‑69 (MQ=255)
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGAt > 1:2532044/1‑69 (MQ=255)
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGAt > 1:2473215/1‑69 (MQ=255)
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGAt > 1:2941318/1‑69 (MQ=255)
gCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGAt > 1:1601262/1‑69 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:3167774/68‑1 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:750877/68‑1 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:1155920/68‑1 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:659328/68‑1 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:2742074/68‑1 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:3211390/68‑1 (MQ=255)
aCGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:2959263/68‑1 (MQ=255)
cGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCa < 1:1916778/67‑1 (MQ=255)
gTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCaa < 1:52533/69‑1 (MQ=255)
tccccTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:944526/64‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2998632/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2556292/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:3064543/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2250581/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2059549/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2789200/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2558467/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:3180164/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:1856510/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:3215207/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:1703122/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:1698666/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:1575933/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:41255/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:604448/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:14586/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:1431077/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:767444/67‑1 (MQ=255)
tCGCCTGATAGATCACCTGGGCCACCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:3428560/67‑1 (MQ=255)
tGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:2912638/69‑1 (MQ=255)
tGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:622933/69‑1 (MQ=255)
tGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:1018272/69‑1 (MQ=255)
tGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:2541288/69‑1 (MQ=255)
tGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:2443683/69‑1 (MQ=255)
tGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:1044813/69‑1 (MQ=255)
gATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:1496412/68‑1 (MQ=255)
aCCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGt < 1:52171/60‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:3197562/50‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:1469481/69‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:1153099/69‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:3400043/69‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:760586/69‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:2345736/69‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:2876208/69‑1 (MQ=255)
tGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:2909868/69‑1 (MQ=255)
ggCCAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:2021387/48‑1 (MQ=255)
cAGCTCATTATTACTGGACGGGTCATAGCACAGCAAATATTCGGt < 1:1630418/45‑1 (MQ=255)
cAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATc < 1:197540/69‑1 (MQ=255)
cAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATc < 1:1856314/69‑1 (MQ=255)
cAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATc < 1:2363978/69‑1 (MQ=255)
cTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTAc > 1:589796/1‑69 (MQ=255)
tCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAg < 1:1009487/60‑1 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGTCGGTAAGCCATCTACTc > 1:1347767/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:2343343/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:594984/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:2527420/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:363125/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:339637/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:3271636/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:3254110/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:1844917/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:3205434/1‑69 (MQ=255)
cATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTc > 1:94226/1‑69 (MQ=255)
attaCTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCa > 1:3435504/1‑67 (MQ=255)
attaCTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCa > 1:467996/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCATcaca > 1:1282923/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGtaca > 1:592293/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:751635/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:965869/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:1471243/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:419204/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:1512434/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:3235023/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:2311275/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:2312253/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:2792506/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:2643981/1‑67 (MQ=255)
cGGGTCATAGCACAGCAAATATTAGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGcaca > 1:512031/1‑67 (MQ=255)
|
GCCACGGATTATGGTAGCTCTCCATCGCCTGATAGATCACCTGGGCCAGCTCATTATTACTGGACGGATCATAGCACAGCAAATATTCGGTATCAGGTAGCGGCGGTAAGCCATCTACTCCACTCAGCACA > minE/1501754‑1501884
|
| 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
