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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,625,149 |
G→A |
35.2% |
R16H (CGT→CAT) |
ftsX → |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,625,149 | 0 | G | A | 35.2%
| 76.2
/ 68.5
| 71 | R16H (CGT→CAT) | ftsX | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (19/27); new base A (14/11); total (33/38) |
| Fisher's exact test for biased strand distribution p-value = 3.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAACGC > minE/2625083‑2625213
|
cTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCtt < 1:1144298/71‑1 (MQ=255)
cTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCtt < 1:682085/71‑1 (MQ=255)
cTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCtt < 1:2409808/71‑1 (MQ=255)
cTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCtt < 1:1669923/71‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:3623984/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:3304523/69‑1 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCt > 1:1342592/1‑67 (MQ=255)
gCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCt > 1:1953631/1‑67 (MQ=255)
cATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCTATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:3215687/68‑1 (MQ=255)
cATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:2379569/68‑1 (MQ=255)
aTGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCg > 1:1068300/1‑71 (MQ=255)
tGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:2052070/1‑68 (MQ=255)
tGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGAt > 1:3112897/1‑68 (MQ=255)
tGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGc < 1:3487935/71‑1 (MQ=255)
tGGAGGCGTGGGCCATGAATAAGAGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGa > 1:2737740/1‑67 (MQ=255)
ggCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTcc < 1:2277731/71‑1 (MQ=255)
ggCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTcc < 1:2156771/71‑1 (MQ=255)
gCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCg < 1:3383654/71‑1 (MQ=255)
gCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCg < 1:3387564/71‑1 (MQ=255)
gCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCg < 1:2263194/71‑1 (MQ=255)
tGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTaa < 1:3308893/71‑1 (MQ=255)
tGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTaa < 1:3418863/71‑1 (MQ=255)
tGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTaa < 1:3573251/71‑1 (MQ=255)
tGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTaa < 1:2019825/71‑1 (MQ=255)
gggCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCtt > 1:2534334/1‑64 (MQ=255)
ggCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGAt > 1:1960844/1‑58 (MQ=255)
ggCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGAt > 1:1377848/1‑58 (MQ=255)
ccATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTaaa > 1:3625313/1‑68 (MQ=255)
ccATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcg > 1:903319/1‑71 (MQ=255)
ccATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcg < 1:1246021/71‑1 (MQ=255)
ccATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAAtcg < 1:1676624/71‑1 (MQ=255)
cATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCt < 1:3385858/51‑1 (MQ=255)
aTGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggt < 1:1669772/71‑1 (MQ=255)
aTGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAAtcggt > 1:1661566/1‑71 (MQ=255)
tGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTg < 1:954598/51‑1 (MQ=255)
gAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAAtcggtcg > 1:2869612/1‑71 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtc < 1:3733678/69‑1 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtc < 1:3461085/69‑1 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtc < 1:2255262/69‑1 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtc < 1:204773/69‑1 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATc > 1:754847/1‑46 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATc > 1:3488364/1‑46 (MQ=255)
aaTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAAtcggtcgg > 1:302083/1‑71 (MQ=255)
aaTAAGCGCGATGCAATCAATCATAATCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAAtcggtcgg < 1:3262742/71‑1 (MQ=255)
aTAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTcggc < 1:2062330/71‑1 (MQ=255)
aGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCggcggc > 1:2466012/1‑71 (MQ=255)
cgcgATGCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCt > 1:2703665/1‑70 (MQ=255)
tGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGc > 1:1701523/1‑70 (MQ=255)
tGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCGTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGc > 1:3661754/1‑70 (MQ=255)
gCAATCAATCATATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAAtcggtcgg > 1:2408049/1‑59 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcgg > 1:1581186/1‑71 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcgg > 1:2623943/1‑71 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcgg < 1:3580831/71‑1 (MQ=255)
atcaatcaTATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcgg < 1:1656835/71‑1 (MQ=255)
tcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATc > 1:101985/1‑36 (MQ=255)
tcaatcaTATTCGGCAGTTTGGCGGGCGTCTTGATc > 1:3028004/1‑36 (MQ=255)
caatcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtc > 1:3150350/1‑52 (MQ=255)
caatcaTATTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGAcggc > 1:373310/1‑70 (MQ=255)
atcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAg > 1:1576353/1‑60 (MQ=255)
tcaTATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTc > 1:1870206/1‑71 (MQ=255)
atatTCGGCAGTTTGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGt < 1:2306461/71‑1 (MQ=255)
ttCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGc < 1:1739718/56‑1 (MQ=255)
tCGGCAGTTTGGCGGGCGTCTTGATAGCTTCCGTAAATCGGTCGGCGGCTCAggg > 1:2414246/1‑54 (MQ=255)
cAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAAtcggt > 1:228107/1‑38 (MQ=255)
gTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCaa < 1:2840038/71‑1 (MQ=255)
gTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCaa < 1:1616376/71‑1 (MQ=255)
gTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCa > 1:1234655/1‑70 (MQ=255)
tttGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtcg < 1:1576267/37‑1 (MQ=255)
tttGGCGGGCGTCTTGATCGCTTCCGTAAAtcggtcg < 1:2458810/37‑1 (MQ=255)
tGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGt > 1:177710/1‑58 (MQ=255)
tGGCGGGCATCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCaaaa < 1:1045719/70‑1 (MQ=255)
ggcgggcgTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAAc < 1:2556944/70‑1 (MQ=255)
gcgggcaTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAAcgc < 1:1603770/71‑1 (MQ=255)
gcgggcaTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAAcgc < 1:196587/71‑1 (MQ=255)
|
CTTGCATGGAGGCGTGGGCCATGAATAAGCGCGATGCAATCAATCATATTCGGCAGTTTGGCGGGCGTCTTGATCGCTTCCGTAAATCGGTCGGCGGCTCAGGCGACGGCGGTCGTAACGCACCAAAACGC > minE/2625083‑2625213
|
| 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
