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 |
1,967,340 |
G→A |
44.2% |
Y430Y (TAC→TAT) |
tktA ← |
transketolase 1, thiamin‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,967,340 | 0 | G | A | 44.2%
| 46.2
/ 112.5
| 140 | Y430Y (TAC→TAT) | tktA | transketolase 1, thiamin‑binding |
| Reads supporting (aligned to +/- strand): ref base G (50/28); new base A (17/45); total (67/73) |
| Fisher's exact test for biased strand distribution p-value = 1.86e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.86e-01 |
Only 100 of 143 total aligned reads displayed.
TGTTTCATCAGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAATCGCGGTCATACCGAACTCGCGAAC > minE/1967272‑1967405
|
tGTTTCATCAGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGgtg < 1:1680033/69‑1 (MQ=255)
tcatcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGgtg > 1:2049774/1‑65 (MQ=255)
tcatcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGgtg > 1:79461/1‑65 (MQ=255)
atcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:1959942/68‑1 (MQ=255)
atcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:441632/68‑1 (MQ=255)
atcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:1666147/68‑1 (MQ=255)
atcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:1242708/68‑1 (MQ=255)
atcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:1280915/68‑1 (MQ=255)
atcaGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:3145879/68‑1 (MQ=255)
ccATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCAc < 1:1501774/69‑1 (MQ=255)
ccATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCAc < 1:225568/69‑1 (MQ=255)
ccATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCAc < 1:3237480/69‑1 (MQ=255)
aTACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCg < 1:3375249/69‑1 (MQ=255)
acgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACgg < 1:2047933/54‑1 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGaa > 1:3241669/1‑59 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:774761/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:301095/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:2013352/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:456071/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1044099/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:2834233/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1879283/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1232464/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1517445/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1485918/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:739081/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1463850/1‑69 (MQ=255)
cgtacgGCGTTACGTGCGTATTCCACGAACATAAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGc > 1:1310410/1‑69 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:2391771/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:2809697/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:3351895/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:395066/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:26556/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:2955332/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:1009842/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:194863/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:864522/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:1321400/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:684896/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:624917/1‑66 (MQ=255)
cgGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:559052/1‑66 (MQ=255)
cgGAGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCa > 1:1743768/1‑66 (MQ=255)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAACCCACCGTGCa > 1:2062800/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGc > 1:2418803/1‑64 (MQ=21)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:1754035/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:1869611/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:478380/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:2231823/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:1382680/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:2142328/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:1160558/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:3117644/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCa > 1:3038353/1‑65 (MQ=25)
ggCATTACGTGCGTATTCCACGAACATCAGGAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAggg > 1:2326529/1‑68 (MQ=25)
gCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGga < 1:942403/68‑1 (MQ=255)
cGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGga < 1:1012078/67‑1 (MQ=255)
cGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTa > 1:2939075/1‑68 (MQ=255)
cGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTa > 1:2703656/1‑68 (MQ=255)
cGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTa > 1:730589/1‑68 (MQ=255)
cGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTa > 1:1551449/1‑68 (MQ=255)
aTTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCaa < 1:509513/69‑1 (MQ=255)
aTTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCaa < 1:2413867/69‑1 (MQ=255)
aTTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCaa < 1:2351170/69‑1 (MQ=255)
ttCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAAt > 1:873325/1‑69 (MQ=255)
ttCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAAt > 1:1395638/1‑69 (MQ=255)
ttCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAAt > 1:770545/1‑69 (MQ=255)
ccACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAATcg > 1:2292928/1‑69 (MQ=255)
aGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAATCGCGGTCATACCg < 1:712426/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:501522/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:296722/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:520789/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:1671513/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:617727/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:1480681/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:944055/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:2998896/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:1996775/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:3036342/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:2941636/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:3302976/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:3280343/69‑1 (MQ=255)
gAAGGTTGAGGTATACGGCAGAAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGaa < 1:1166760/69‑1 (MQ=255)
ggTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAATCGCGGTCATACCGAACTCGCGAac > 1:505274/1‑69 (MQ=255)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:3303047/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:1060310/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:3017136/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:871977/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:112568/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:829233/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:2773791/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:470258/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:1569656/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:620223/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:2346268/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:582793/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:384504/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:541657/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:391417/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:2072864/68‑3 (MQ=21)
ggTATACGGCAGGAAACCACCGTGCAGGGAGATACCGTTGGCAATCGCAGTCATACCGAATTcacgta < 1:1917442/68‑3 (MQ=21)
|
TGTTTCATCAGCGCAGCCATACGTACGGCGTTACGTGCGTATTCCACGAACATCAGGAAGGTGGAGGTGTACGGCAGGAAGCCACCGTGCAGGGAGATACCGTTAGCAATCGCGGTCATACCGAACTCGCGAAC > minE/1967272‑1967405
|
| 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
