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 |
1,738,392 |
C→T |
33.2% |
K473K (AAG→AAA) |
lepA ← |
GTP binding membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,738,392 | 0 | C | T | 33.2%
| 55.2
/ 34.9
| 69 | K473K (AAG→AAA) | lepA | GTP binding membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (38/8); new base T (3/20); total (41/28) |
| Fisher's exact test for biased strand distribution p-value = 2.84e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01 |
AGCGCATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGCAC > minE/1738327‑1738460
|
aGCGCATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTg < 1:3148109/69‑1 (MQ=255)
aGCGCATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTg < 1:3409814/69‑1 (MQ=255)
aGCGCATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTg < 1:746266/69‑1 (MQ=255)
aGCGCATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTg < 1:3018140/69‑1 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGt > 1:2319424/1‑69 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGt > 1:2374842/1‑69 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGt > 1:3143414/1‑69 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGt > 1:3229680/1‑69 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGt > 1:2803100/1‑69 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGt > 1:600140/1‑69 (MQ=255)
cATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTAGAAGt > 1:3120888/1‑69 (MQ=255)
cACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGGAGTTGTAATCCaga > 1:2916932/1‑68 (MQ=255)
cACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCagag > 1:1813169/1‑69 (MQ=255)
cACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCagag > 1:2199581/1‑69 (MQ=255)
aCCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAgaga > 1:2509221/1‑69 (MQ=255)
aCCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAgaga > 1:3255747/1‑69 (MQ=255)
aCCGTTGATTAATACGTCTACACGTACCACGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAgaga > 1:1228804/1‑69 (MQ=255)
cGTCTACACGTACCATGTCGGCCGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCAcgcg > 1:3402960/1‑69 (MQ=255)
cacGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAg > 1:2007342/1‑69 (MQ=255)
cacGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAg > 1:1675402/1‑69 (MQ=255)
cacGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAg > 1:3073136/1‑69 (MQ=255)
aCCATGTCGGACGCCTGGAATCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:2629210/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAATCGTTTGAAGTTGTAATCCAGAGACGCAAAACCACGCGAGGTAGATTTc < 1:585329/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:2063199/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:2516946/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:2776598/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:2919761/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:2944213/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:154736/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:1055105/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:881738/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:830954/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:1333298/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:800160/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:731941/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:1389420/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:1658920/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:529117/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:526102/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:1784528/69‑1 (MQ=255)
aCCATGTCGGACGCCTGGAAGCGTTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTc < 1:178648/69‑1 (MQ=255)
tCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGa > 1:180993/1‑69 (MQ=255)
tCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGa > 1:3287570/1‑69 (MQ=255)
aCGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGAt > 1:366241/1‑66 (MQ=255)
aCGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCg < 1:3197176/68‑1 (MQ=255)
aCGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCg < 1:641384/68‑1 (MQ=255)
aCGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCg < 1:1421934/68‑1 (MQ=255)
aCGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCg < 1:2442223/68‑1 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:3212981/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:928303/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:3173825/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1009286/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1086184/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1647337/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1729862/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1497403/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1959828/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:2134673/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:2488569/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1365279/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCga > 1:1092595/1‑68 (MQ=255)
cGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCg > 1:2194455/1‑67 (MQ=255)
gAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGaagaag > 1:789336/1‑67 (MQ=255)
gAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGaagaag > 1:2165633/1‑67 (MQ=255)
gAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGaagaag > 1:2336272/1‑67 (MQ=255)
gAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGaagaag > 1:1372589/1‑67 (MQ=255)
gAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGaagaag > 1:448362/1‑67 (MQ=255)
gAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGaagaag > 1:1637568/1‑67 (MQ=255)
aGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCg > 1:464608/1‑68 (MQ=255)
cTTGATGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:138501/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:1780116/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:2630512/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:3435604/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:3345830/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:2513860/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:3207575/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:1088795/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:926070/69‑1 (MQ=255)
cTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGcac < 1:2536204/69‑1 (MQ=255)
|
AGCGCATCAACACGTTCACCGTTGATTAATACGTCTACACGTACCATGTCGGACGCCTGGAAGCGCTTGAAGTTGTAATCCAGAGACGCATAACCACGCGAGGTAGATTTCAGGCGATCGAAGAAGTCGAGCAC > minE/1738327‑1738460
|
| 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
