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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,493,033 |
C→T |
19.6% |
Q1072* (CAG→TAG) |
evgS → |
hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,493,033 | 0 | C | T | 19.6%
| 260.1
/ 53.9
| 112 | Q1072* (CAG→TAG) | evgS | hybrid sensory histidine kinase in two‑component regulatory system with EvgA |
| Reads supporting (aligned to +/- strand): ref base C (35/55); new base T (13/9); total (48/64) |
| Fisher's exact test for biased strand distribution p-value = 9.79e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 116 total aligned reads displayed.
GTTAAGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAAATAA > W3110S.gb/2492963‑2493100
|
gTTAAGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTc < 1:3316232/71‑1 (MQ=255)
aaGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAg < 1:4045758/70‑1 (MQ=255)
aGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAagttagtt < 1:2693375/71‑1 (MQ=255)
aGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTTAGt < 1:2371826/70‑1 (MQ=255)
aGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGt < 1:5049214/70‑1 (MQ=255)
aGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTCAAAACACATTTAAGTCAGtt < 1:5052884/71‑1 (MQ=255)
tGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTTAGTTACACCAAGtt < 1:4522995/71‑1 (MQ=255)
tGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTTAGTTACACCAAGtt > 1:4848548/1‑71 (MQ=255)
tGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTTAGTTACACCAAGtt > 1:5037703/1‑71 (MQ=255)
tGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTTAGTTACACCAAGtt > 1:3990864/1‑71 (MQ=255)
aaCTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTgc > 1:4731405/1‑71 (MQ=255)
cTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTgcg > 1:1897253/1‑70 (MQ=255)
aTGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:5147704/69‑1 (MQ=255)
aTGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:380154/69‑1 (MQ=255)
aTGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:107540/69‑1 (MQ=255)
tgtttgttCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCatat < 1:2098968/71‑1 (MQ=255)
tgtttgttCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCat < 1:2149204/69‑1 (MQ=255)
tgtttgttCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:1448296/68‑1 (MQ=255)
ttCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCa < 1:4082273/44‑1 (MQ=255)
cAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCt > 1:4333585/1‑70 (MQ=255)
aaaCCGTTGACCCTGGATGTCCTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc < 1:148043/70‑1 (MQ=255)
aaaCCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc < 1:4793045/70‑1 (MQ=255)
aaCCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAg < 1:4573303/71‑1 (MQ=255)
aCCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGt < 1:3903482/71‑1 (MQ=255)
aCCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGt < 1:3331459/71‑1 (MQ=255)
aCCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGt < 1:188137/71‑1 (MQ=255)
aCCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGt < 1:3909423/71‑1 (MQ=255)
ccGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc > 1:358034/1‑67 (MQ=255)
cGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTAt > 1:1718510/1‑71 (MQ=255)
cGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTAt > 1:3843702/1‑71 (MQ=255)
cGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGAGCATATTGCACCTCAGTAt > 1:5070363/1‑71 (MQ=255)
ttGACCCTGGATGTACTGAAAACACATTTAAGTCAGt < 1:4186762/37‑1 (MQ=255)
gACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGc < 1:4621000/70‑1 (MQ=255)
cTGGATGTACTGAAAACACATTTAAGTCAGTTATACCAAGTTGCGCATATTGCACCTCAGTATCGc < 1:4466870/66‑1 (MQ=255)
cTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGc < 1:1743775/66‑1 (MQ=255)
tGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTg < 1:4109499/51‑1 (MQ=255)
tGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTg < 1:2992072/51‑1 (MQ=255)
tGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCa > 1:4770126/1‑53 (MQ=255)
ggATGTACTGAAAACACATTTAAGTTAGTTACACCAAGTTGCGCata > 1:1214338/1‑47 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCa > 1:1632901/1‑36 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTggg < 1:1633469/43‑3 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCat < 1:4519906/46‑1 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCat > 1:1203172/1‑46 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:255768/45‑1 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCtt > 1:3817161/1‑70 (MQ=255)
ggATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCtt > 1:334853/1‑70 (MQ=255)
gATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCtt < 1:2658945/69‑1 (MQ=255)
gATGTACTGAAAACACATTTAAGTCAGTTACACAAAGTTGCGCatat > 1:2795842/1‑47 (MQ=255)
tGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCata > 1:3602751/1‑44 (MQ=255)
tGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCata > 1:2255467/1‑44 (MQ=255)
tGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCata > 1:3073483/1‑44 (MQ=255)
tACTGAAAACACATTTAAGTTAGTTACACCAAGTTGCGCa < 1:5126008/40‑1 (MQ=255)
tACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:985282/40‑1 (MQ=255)
tACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCAc > 1:2368824/1‑48 (MQ=255)
tACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc < 1:3396079/51‑1 (MQ=255)
tACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc < 1:4085102/51‑1 (MQ=255)
tACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGatat < 1:2847681/70‑1 (MQ=255)
tACTGAAAACACATTTAAGTCAGTTACACCAAGTGGCGCATATTGCACCTc < 1:1779620/51‑1 (MQ=255)
aCTGAAAACACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATc > 1:2213723/1‑70 (MQ=255)
cTGAAAACACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCg > 1:2193208/1‑70 (MQ=255)
cTGAAAACACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCg > 1:4150408/1‑70 (MQ=255)
cTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:1352037/38‑1 (MQ=255)
cTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:2306067/38‑1 (MQ=255)
cTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:2429326/38‑1 (MQ=255)
cTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCa < 1:3958750/38‑1 (MQ=255)
cTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCt < 1:149346/48‑1 (MQ=255)
gAAAACACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATc < 1:4537472/67‑1 (MQ=255)
gAAAACACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATc < 1:2583757/67‑1 (MQ=255)
gAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCa > 1:3652125/1‑48 (MQ=255)
gAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCa > 1:4055358/1‑48 (MQ=255)
gAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCa > 1:2771266/1‑48 (MQ=255)
gAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGaa > 1:2791185/1‑70 (MQ=255)
aaaaCACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc < 1:1597136/46‑1 (MQ=255)
aaaaCACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTc < 1:5097040/46‑1 (MQ=255)
aaaaCACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGa > 1:2027573/1‑62 (MQ=255)
aaaaCACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAg > 1:2721670/1‑70 (MQ=255)
aaaCACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCa < 1:4360449/41‑1 (MQ=255)
aaaCACATTTAAGTTAGTTACACCAAGTTGCGCATATTGCa < 1:2065912/41‑1 (MQ=255)
aaCACATTTAAGTCAGTTACACCAAGTTGCGCACATTGCACCTCAGTATCGCCACCTTGATATCGAAGc < 1:2274028/69‑1 (MQ=255)
acacATTTAAGTTAGTTACACCAAGTTGCGCATATTGCAcc > 1:1847247/1‑41 (MQ=255)
acaTTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTAGATATCGAAGCCCTg > 1:5069391/1‑70 (MQ=255)
caTTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCg > 1:1927787/1‑47 (MQ=255)
caTTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATc < 1:4026865/60‑1 (MQ=255)
caTTTAAGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGaa > 1:2730705/1‑63 (MQ=255)
caTTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAg > 1:557629/1‑42 (MQ=255)
caTTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAg > 1:563800/1‑42 (MQ=255)
caTTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAg > 1:2054221/1‑42 (MQ=255)
caTTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAg > 1:2429770/1‑42 (MQ=255)
caTTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGc < 1:1562238/48‑1 (MQ=255)
tttAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGa < 1:2507866/68‑1 (MQ=255)
tttAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGa < 1:3980352/68‑1 (MQ=255)
tttAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGa < 1:374324/68‑1 (MQ=255)
tAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCAGaaaaa > 1:4355039/1‑70 (MQ=255)
aaGTTAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaat > 1:3998408/1‑70 (MQ=255)
agttagttACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaata < 1:2582254/70‑1 (MQ=255)
aGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaataa < 1:379148/71‑1 (MQ=255)
gTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaataa < 1:2595124/70‑1 (MQ=255)
gTCAGTTACACCAAGTTGCGCATATTGCAACTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaataa < 1:59772/70‑1 (MQ=255)
tCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaataa < 1:3494012/69‑1 (MQ=255)
tCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAaataa < 1:3488258/69‑1 (MQ=255)
|
GTTAAGTTGCGGCATGAACTTATGTTTGTTCAAACCGTTGACCCTGGATGTACTGAAAACACATTTAAGTCAGTTACACCAAGTTGCGCATATTGCACCTCAGTATCGCCACCTTGATATCGAAGCCCTGAAAAATAA > W3110S.gb/2492963‑2493100
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
