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 |
2,103,531 |
C→T |
46.3% |
T74T (ACG→ACA) |
agaR ← |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,103,531 | 0 | C | T | 46.3%
| 5.8
/ 48.3
| 61 | T74T (ACG→ACA) | agaR | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base C (12/20); new base T (9/19); total (22/39) |
| Fisher's exact test for biased strand distribution p-value = 7.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.90e-01 |
TCATCGCGGTGTTCAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAG > minE/2103476‑2103599
|
tCATCGCGGTGTTCAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAg > 1:2640539/1‑68 (MQ=255)
tCGCGGTGTTCAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATc < 1:978597/68‑1 (MQ=255)
tCGCGGTGTTCAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATc < 1:2838524/68‑1 (MQ=255)
cgcgGTGTTCAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATc < 1:1127829/67‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATGGCAGATCAACGCGccac < 1:2960914/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:2554341/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:906091/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:51036/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:3431649/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:3175162/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:1747773/68‑1 (MQ=255)
cAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGccac < 1:1314987/68‑1 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGTTATCGCAGATc > 1:329943/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:1474577/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:11400/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:947485/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:819688/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:3429462/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:2747276/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:1839729/1‑54 (MQ=255)
gcgcTTTTATCTTCCACTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATc > 1:1740327/1‑54 (MQ=255)
tttATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg < 1:3284981/69‑1 (MQ=255)
tttATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg < 1:490366/69‑1 (MQ=255)
tttATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg < 1:2269678/69‑1 (MQ=255)
tttATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg < 1:607664/69‑1 (MQ=255)
tttATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg < 1:698568/69‑1 (MQ=255)
tATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg > 1:1359964/1‑67 (MQ=255)
tATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg > 1:2444082/1‑67 (MQ=255)
tATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg > 1:824196/1‑67 (MQ=255)
tATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGgcacg > 1:861892/1‑67 (MQ=255)
aTCTTCCACTGATGGCTCGACTGACGGCGTCGTTCTATc > 1:2599739/1‑39 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:611837/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1147484/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1143759/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:910935/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:401605/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1417193/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:3193230/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:3138508/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:124988/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:2662335/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:2657014/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:2336000/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:2396972/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:2096116/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:2499782/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1988615/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1849616/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1692852/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTTGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATc < 1:1278662/68‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATcc < 1:783908/69‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATcc < 1:1220414/69‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATcc < 1:1646644/69‑1 (MQ=255)
cTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATcc < 1:2825327/69‑1 (MQ=255)
gCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATcccc > 1:1576453/1‑65 (MQ=255)
gCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCt > 1:2114390/1‑69 (MQ=255)
gCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCt > 1:55411/1‑69 (MQ=255)
gCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCt > 1:1485277/1‑69 (MQ=255)
gCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCt > 1:1836988/1‑69 (MQ=255)
gCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCt > 1:3104072/1‑69 (MQ=255)
gCTCGACTGACGGCGTAGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCt > 1:2498658/1‑69 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:2136204/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:1183633/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:1529681/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:719789/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:739501/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:2609856/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:1503393/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:191945/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:309346/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:1226455/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:161861/69‑1 (MQ=255)
cgtGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAg < 1:2675958/69‑1 (MQ=255)
|
TCATCGCGGTGTTCAGTGCGCTTTTATCTTCCACTGATGGCTCGACTGACGGCGTCGTGCTATCGCAGATCAACGCGCCACCATAGGCACGCACAGCGATCCCCTGCTTTTCCAGAAACGCCAG > minE/2103476‑2103599
|
| 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
