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 |
247,548 |
T→G |
23.4% |
A397A (GCT→GCG) |
phoR → |
sensory histidine kinase in two‑component regulatory system with PhoB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 247,548 | 0 | T | G | 23.4%
| 114.6
/ 38.7
| 81 | A397A (GCT→GCG) | phoR | sensory histidine kinase in two‑component regulatory system with PhoB |
| Reads supporting (aligned to +/- strand): ref base T (22/40); new base G (9/10); total (31/50) |
| Fisher's exact test for biased strand distribution p-value = 4.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
AAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGTTTT > minE/247490‑247614
|
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:1091678/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:1177246/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:72935/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:121115/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:1229424/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:335155/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:68342/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:1534427/1‑69 (MQ=255)
aaGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc > 1:651211/1‑69 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa > 1:2247935/1‑60 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa > 1:3080572/1‑60 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa > 1:185692/1‑60 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa < 1:1736618/60‑1 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa < 1:1600041/60‑1 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa > 1:452087/1‑60 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa < 1:678683/60‑1 (MQ=255)
cgcgTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa < 1:470123/60‑1 (MQ=255)
cGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCg < 1:2748778/68‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:1344675/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:2223415/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:2099995/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:2702616/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:1148175/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:223491/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:1782381/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:3304018/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:1237740/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:1081732/69‑1 (MQ=255)
aaCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:3406169/69‑1 (MQ=255)
aCCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGaa < 1:781519/68‑1 (MQ=255)
tAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGagag < 1:3125502/69‑1 (MQ=255)
tAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGagag < 1:1083263/69‑1 (MQ=255)
tAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGagag < 1:2519969/69‑1 (MQ=255)
gCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTa < 1:1870308/69‑1 (MQ=255)
ggATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTAc < 1:3192294/68‑1 (MQ=255)
ggATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTAc < 1:706118/68‑1 (MQ=255)
ggATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTAc < 1:2443968/68‑1 (MQ=255)
ggATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTAc < 1:1263906/68‑1 (MQ=255)
aTTAGGGTTAGCGATCGTTAAACATGCTGTGAATCATCACGAAACTCg < 1:1352355/48‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:392979/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:1175882/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:2240051/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:1515650/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:160789/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:2299513/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:555159/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:1920006/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:3062487/42‑1 (MQ=255)
aTTAGGGTTAGCGATCGTGAAACATGCGGTGAATCATCACGa < 1:3017395/42‑1 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:230926/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:1368935/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:1923869/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:2918230/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:2826802/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:2005075/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGaaaa > 1:2672444/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATCATCACGAAAGTCGCCAGAATATTGAGAGTACAGTAGGaaaa > 1:375550/1‑69 (MQ=255)
ttAGCGATCGTGAAACATGCGGTGAATAATCACGAAAGACGCCTGAATATTGAGAGTAAAGTAGGaaaa > 1:2766684/1‑69 (MQ=255)
aGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAgg > 1:2988446/1‑69 (MQ=255)
aGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAgg > 1:130788/1‑69 (MQ=255)
aGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAgg > 1:2782868/1‑69 (MQ=255)
aGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAgg > 1:1290462/1‑69 (MQ=255)
aGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAgg > 1:1181706/1‑69 (MQ=255)
aGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAgg > 1:74472/1‑69 (MQ=255)
cGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACg > 1:1823054/1‑69 (MQ=255)
cGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACg > 1:2673840/1‑69 (MQ=255)
tGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGttt > 1:3271325/1‑69 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTATGAAAAGGAACACGTTTCAGtttt < 1:3178167/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:1521954/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:1588332/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:60445/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:302519/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:2856928/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:2097492/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:717027/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:2573222/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:2232091/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:2422236/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:820743/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:821444/69‑1 (MQ=255)
gCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGtttt < 1:899335/69‑1 (MQ=255)
|
AAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAAGTCGCCTGAATATTGAGAGTACAGTAGGAAAAGGAACACGTTTCAGTTTT > minE/247490‑247614
|
| 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
