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 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
311,811 |
A→C |
19.7% |
V354V (GTT→GTG) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 311,811 | 0 | A | C | 19.7%
| 175.9
/ 42.9
| 81 | V354V (GTT→GTG) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base A (25/40); new base C (10/6); total (35/46) |
| Fisher's exact test for biased strand distribution p-value = 9.76e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACGAACG > minE/311741‑311881
|
cGAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATa < 1:3872070/71‑1 (MQ=255)
gAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCTCGCGGAAGTTCTGCAGGAACAGATACATaa > 1:119129/1‑71 (MQ=255)
gAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATaa > 1:2923309/1‑71 (MQ=255)
gAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATaa > 1:3833828/1‑71 (MQ=255)
gAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATaa > 1:1819928/1‑71 (MQ=255)
gAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATaa > 1:3168855/1‑71 (MQ=255)
aacAACACCACGGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCAc > 1:571554/3‑71 (MQ=2)
aacAACACCACGGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCAc > 1:1167036/3‑71 (MQ=2)
aacAACACCACGGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCAc > 1:3808043/3‑71 (MQ=2)
aGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAAc > 1:2781428/1‑71 (MQ=255)
aGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAAc < 1:1282483/71‑1 (MQ=255)
gCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAAc > 1:3407060/1‑70 (MQ=255)
acAACACCACGGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCAc < 1:1004605/69‑1 (MQ=2)
cAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAAc > 1:542339/1‑69 (MQ=255)
cAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCa < 1:1035660/71‑1 (MQ=255)
cAACACCACGGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCAc > 1:861068/1‑69 (MQ=2)
caccacgGGTACCGCAATGGTGGGGATCAGCGTTTCTCGCATATTCTGCAAGAACAGATACATCACCAgg > 1:198794/2‑70 (MQ=9)
caccacgGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCACCAGGa < 1:1648415/70‑1 (MQ=9)
caccacgGGTACCGCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCACCAGGa < 1:1335111/70‑1 (MQ=9)
ccaccGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGaa > 1:1643001/1‑70 (MQ=255)
ccaccGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGaa > 1:2530623/1‑70 (MQ=255)
ccaccGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAac < 1:2281146/71‑1 (MQ=255)
caccGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGaa > 1:2588772/1‑69 (MQ=255)
accGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAacac < 1:1917300/71‑1 (MQ=255)
accGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAA‑CAGGAacac > 1:376607/1‑70 (MQ=255)
ccGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGa < 1:600954/66‑1 (MQ=255)
cGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAacac > 1:3109271/1‑69 (MQ=255)
ccgCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCACCAGGAACACCAGcat < 1:3386862/68‑1 (MQ=9)
cGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAgg < 1:3751181/59‑1 (MQ=255)
cGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGgatg < 1:2025039/71‑1 (MQ=255)
ggCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGgatga < 1:361876/71‑1 (MQ=255)
cgCAATGGTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCACCAGGAACACCAGcataa > 1:363357/2‑69 (MQ=9)
cAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATc > 1:2326278/1‑71 (MQ=255)
aaTGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATc < 1:1798241/70‑1 (MQ=255)
aaTGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCg < 1:1150541/71‑1 (MQ=255)
tGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCt > 1:207882/1‑71 (MQ=255)
ggTGGGGATCAGCGTTGCTCGCATATTCTGCAAGAACAGATACATCACCAGGAACACCAGCATAATGGCtt > 1:3127576/1‑71 (MQ=2)
tCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCg < 1:2622455/71‑1 (MQ=255)
aaTCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACg < 1:432043/52‑1 (MQ=255)
cAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAgg < 1:2428334/43‑1 (MQ=255)
cAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAgg < 1:2055783/43‑1 (MQ=255)
aaCGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGaa < 1:3018264/44‑1 (MQ=255)
aaCGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCg < 1:3276463/70‑1 (MQ=255)
aCGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGgatgat > 1:3532092/1‑55 (MQ=255)
aCGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGtt < 1:884341/71‑1 (MQ=255)
cGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGttt < 1:3800745/71‑1 (MQ=255)
gTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAg > 1:239906/1‑38 (MQ=255)
tCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTa < 1:2852763/71‑1 (MQ=255)
gcgGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCg < 1:1585492/62‑1 (MQ=255)
gAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTa < 1:568395/64‑1 (MQ=255)
gAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACtt > 1:2785062/1‑71 (MQ=255)
gAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACtt < 1:1908208/71‑1 (MQ=255)
gAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACt > 1:243692/1‑70 (MQ=255)
atattCTGCAAGAACAGATACATCACCAGGAACACCAGCATAATGGCTTCGAACAGCGTTTTTACCACTTc > 1:688874/4‑71 (MQ=16)
aaGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTc < 1:2326430/71‑1 (MQ=255)
aGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCg < 1:576963/71‑1 (MQ=255)
gTTCTGCAGGAACAGATACATAACCAGGAACACGAgg < 1:1324104/37‑1 (MQ=255)
gTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGt < 1:3177601/71‑1 (MQ=255)
ttCTGCAAGAACAGATACATCACCAGGAACACCAGCATAATGGCTTCGAACAGCGTTTTTACCACTTCGTg < 1:2640254/71‑1 (MQ=21)
cTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGc > 1:3766991/1‑42 (MQ=255)
cTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAAc > 1:2822574/1‑60 (MQ=255)
gCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTa < 1:2295321/56‑1 (MQ=255)
cAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATa < 1:2749706/70‑1 (MQ=255)
cAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCCTGAATa < 1:912443/70‑1 (MQ=255)
aGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGa > 1:23756/1‑43 (MQ=255)
aGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATag < 1:41066/70‑1 (MQ=255)
aGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATag < 1:998935/70‑1 (MQ=255)
aGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATag < 1:1467086/70‑1 (MQ=255)
ggAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATa > 1:3036528/1‑68 (MQ=255)
gAACAGATACATCACCAGGAACACCAGCATAATGGCTTCGAACAGCGtt < 1:1705182/49‑1 (MQ=16)
gAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATa > 1:3152570/1‑67 (MQ=255)
aaCATATACATCACCAGGAACACCAGCATAATGGCTTCGAACAGCGTTTTTACCACTTCGTGAATagaaag > 1:936893/1‑68 (MQ=255)
aaCAGATACATCACCAGGAACACCAGCATAATGGCTTCGAACAGCGTTTTTACCACTTCGTGAATagaaag > 1:2180403/1‑68 (MQ=18)
aCAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTa < 1:665536/50‑1 (MQ=255)
cAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGAttt < 1:2916420/71‑1 (MQ=255)
aGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGAtttt > 1:2720296/1‑71 (MQ=255)
aGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGAtttt < 1:2519929/71‑1 (MQ=255)
gATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGAtttt < 1:2376201/70‑1 (MQ=255)
gATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTc < 1:16216/71‑1 (MQ=255)
aTACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTc > 1:1030851/1‑54 (MQ=255)
aTACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCa > 1:2419244/1‑71 (MQ=255)
tACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGtt > 1:1949651/1‑42 (MQ=255)
cATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAAc < 1:1544294/45‑1 (MQ=255)
cATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACg > 1:3199439/1‑70 (MQ=255)
cATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACg > 1:3619781/1‑70 (MQ=255)
aTAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACGaa < 1:458249/71‑1 (MQ=255)
tAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACg < 1:1422026/68‑1 (MQ=255)
aaCCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACGAACg > 1:3135286/1‑71 (MQ=255)
aaCCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACGAACg > 1:3267093/1‑71 (MQ=255)
|
CGAGCAATACCACCGGTACGGCAATGGTCGGAATCAACGTCGCGCGGAAGTTCTGCAGGAACAGATACATAACCAGGAACACGAGGATGATCGCTTCGACCAGCGTTTTAACCACTTCGTGAATAGAGATTTTCACGAACG > minE/311741‑311881
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
