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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,277,106 |
A→G |
70.4% |
T84A (ACT→GCT) |
sohA → |
predicted regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,277,106 | 0 | A | G | 70.4%
| 82.9
/ 39.5
| 54 | T84A (ACT→GCT) | sohA | predicted regulator |
| Reads supporting (aligned to +/- strand): ref base A (8/8); new base G (22/16); total (30/24) |
| Fisher's exact test for biased strand distribution p-value = 7.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGAGGATCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGATGATGAG > W3110S.gb/3277039‑3277174
|
ggaggaTCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTc < 1:1786089/71‑1 (MQ=255)
ggaTCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTc < 1:856452/71‑1 (MQ=255)
ggaTCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTc < 1:1778412/71‑1 (MQ=255)
tCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcat > 1:2757227/1‑71 (MQ=255)
cATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcatt > 1:2203187/1‑71 (MQ=255)
aCTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattcaa > 1:1410953/1‑71 (MQ=255)
tGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattcaacat < 1:364388/70‑1 (MQ=255)
tGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaacatt > 1:1782950/1‑71 (MQ=255)
tGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaacat > 1:2177212/1‑70 (MQ=255)
aTGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattcaacattcaa < 1:138447/71‑1 (MQ=255)
cATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCattcaacattcaac > 1:1285640/1‑69 (MQ=255)
cATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCAttcaacattcaaca < 1:1890480/70‑1 (MQ=255)
tttttGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCcattcaacattca < 1:2214296/65‑1 (MQ=255)
tttGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGga > 1:792816/1‑70 (MQ=255)
agTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTACATTCAACATTCAACAAGgaaagaa < 1:1862875/70‑1 (MQ=255)
gTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGgaaagaaa < 1:2186786/71‑1 (MQ=255)
gTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaagaaa < 1:2775326/71‑1 (MQ=255)
ttttCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattcaa < 1:553678/51‑1 (MQ=255)
ttCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattcaa > 1:2343321/1‑49 (MQ=255)
ttCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACtt > 1:2197267/1‑71 (MQ=255)
ttCTGGATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACtt > 1:2756067/1‑71 (MQ=255)
gATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattca < 1:1753823/43‑1 (MQ=255)
gATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCcattca < 1:2329994/43‑1 (MQ=255)
gATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTc < 1:2749060/69‑1 (MQ=255)
gATGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTc < 1:20000/69‑1 (MQ=255)
tGCAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTc > 1:1495091/1‑67 (MQ=255)
cAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTgg < 1:2447815/70‑1 (MQ=255)
cAGATATCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTgg < 1:465873/70‑1 (MQ=255)
gATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaaga < 1:2786405/55‑1 (MQ=255)
gATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaaga < 1:491324/55‑1 (MQ=255)
gATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaaga < 1:933771/55‑1 (MQ=255)
atatCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATg < 1:1259862/71‑1 (MQ=255)
atCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGa > 1:836735/1‑71 (MQ=255)
atCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGa > 1:310311/1‑71 (MQ=255)
tCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGAc > 1:618142/1‑71 (MQ=255)
tCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGAc > 1:1291294/1‑71 (MQ=255)
tCCAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGAc > 1:1490204/1‑71 (MQ=255)
tCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGgaaagaa < 1:1115780/52‑1 (MQ=255)
cAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGt > 1:1170934/1‑71 (MQ=255)
cAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGt > 1:2182512/1‑71 (MQ=255)
cAGAACAACCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGt > 1:295486/1‑71 (MQ=255)
cAGAACAACCCGCAAAAAGCTAGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGTCATGGACg > 1:641529/1‑70 (MQ=255)
aacaacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCaa < 1:1529412/71‑1 (MQ=255)
acaacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCaa > 1:277423/1‑70 (MQ=255)
acaacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCaa > 1:247048/1‑70 (MQ=255)
acaacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCaa > 1:839303/1‑70 (MQ=255)
caacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGa > 1:2567369/1‑63 (MQ=255)
caacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACa > 1:2559825/1‑71 (MQ=255)
caacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACa > 1:252235/1‑71 (MQ=255)
caacCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACa > 1:1875490/1‑71 (MQ=255)
aacCCGCAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACAt < 1:1175202/71‑1 (MQ=255)
cccGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACAtt > 1:360205/1‑70 (MQ=255)
cAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCa > 1:2646737/1‑52 (MQ=255)
cAAAAAGCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgatga > 1:2579779/1‑71 (MQ=255)
aaaaagCTCGTCCATTCAACATTCAACAAGgaaagaaa < 1:116806/38‑1 (MQ=255)
aaagCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATtgatgatga < 1:1172174/71‑1 (MQ=255)
aaaCTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGATGATgag < 1:64695/71‑1 (MQ=255)
|
GGAGGATCATACTATGAATGCATTTTTGCGTTTTCTGGATGCAGATATCCAGAACAACCCGCAAAAAACTCGTCCATTCAACATTCAACAAGGAAAGAAACTTGTCGCTGGCATGGACGTCAACATTGATGATGAG > W3110S.gb/3277039‑3277174
|
| 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
