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 |
965,844 |
A→T |
8.5% |
V17D (GTT→GAT) |
ydeM ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 965,844 | 0 | A | T | 8.5%
| 165.6
/ 6.9
| 59 | V17D (GTT→GAT) | ydeM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (25/29); new base T (3/2); total (28/31) |
| Fisher's exact test for biased strand distribution p-value = 6.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
CAGAGTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCAATAAGGC > minE/965777‑965914
|
cAGAGTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAaca > 1:751341/1‑70 (MQ=255)
cAGAGTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAaca > 1:2178624/1‑70 (MQ=255)
cAGAGTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAaca > 1:1745797/1‑70 (MQ=255)
agagTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAacac < 1:882199/70‑1 (MQ=255)
agTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACAtt < 1:3197065/71‑1 (MQ=255)
atccatccATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAATCACATTTGAGATTa > 1:1935879/1‑70 (MQ=255)
atccatccATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTa > 1:369230/1‑70 (MQ=255)
atccatccATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTa > 1:2648572/1‑70 (MQ=255)
atccatccATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTa > 1:2167239/1‑70 (MQ=255)
atccatccATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTAc < 1:674098/71‑1 (MQ=255)
atccatTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAACCAGTAAACACATTTGAGATTACAtt > 1:3287565/1‑70 (MQ=255)
atccatTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACAtt > 1:2344534/1‑70 (MQ=255)
tccatTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGa < 1:760545/71‑1 (MQ=255)
catTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGaa < 1:2360795/70‑1 (MQ=255)
catTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGaa > 1:1839369/1‑70 (MQ=255)
atTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGaaa > 1:1372078/1‑70 (MQ=255)
ttttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTaaa > 1:1746909/1‑46 (MQ=255)
ttttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTaaa > 1:1325237/1‑46 (MQ=255)
ttttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTaaa > 1:370848/1‑46 (MQ=255)
ttttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACt > 1:3261298/1‑71 (MQ=255)
ttttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACt > 1:2487386/1‑71 (MQ=255)
atttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGAtt > 1:1600374/2‑59 (MQ=255)
tttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTAc > 1:2132618/1‑60 (MQ=255)
tttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTg > 1:237225/1‑71 (MQ=255)
ttCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTg < 1:1843632/70‑1 (MQ=255)
cATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGa < 1:1914080/70‑1 (MQ=255)
tGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACTTTTGAGATTACATTGAAAACTGGAggg < 1:764872/71‑1 (MQ=255)
aGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTg < 1:198663/57‑1 (MQ=255)
aGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTg < 1:426085/57‑1 (MQ=255)
gTAAACTGCGACTCGTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACt < 1:3031792/62‑1 (MQ=255)
tAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTg > 1:374297/1‑71 (MQ=255)
aaCTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTga > 1:1384820/1‑43 (MQ=255)
aaCTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTgg < 1:1870268/70‑1 (MQ=255)
aaCTGCAACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTgg < 1:3471616/70‑1 (MQ=255)
aaCAGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTgg < 1:588433/70‑1 (MQ=255)
cTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTgaga < 1:2701781/43‑1 (MQ=255)
tGCGACTCTTTTTCAAGGTAAAAACAGTAATCACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTg > 1:12140/1‑70 (MQ=255)
tGCGACTCTTTTTCAAGGTAAAAACAGTAATCACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTg > 1:635983/1‑70 (MQ=255)
tGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTg > 1:2056943/1‑70 (MQ=255)
cGACTCTTTTTCAATGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGt < 1:1806328/69‑1 (MQ=255)
cGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGt < 1:2402059/69‑1 (MQ=255)
cGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTaa < 1:127945/71‑1 (MQ=255)
gACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGTCTGTAAc < 1:2341941/71‑1 (MQ=255)
gACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAAc < 1:80184/71‑1 (MQ=255)
aCTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTg > 1:1253898/1‑46 (MQ=255)
ctctTTTTCAAGGTAAAAACAGTAATCACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGt < 1:1096625/71‑1 (MQ=255)
ctctTTTTCAAGGTAAAAACAGTAATCACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGt < 1:1005632/71‑1 (MQ=255)
tttCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCa < 1:1462752/69‑1 (MQ=255)
tttCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATc > 1:536779/1‑71 (MQ=255)
tttCAAGGTAAAAACAGTAAACACATCTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCAt < 1:2963455/70‑1 (MQ=255)
ttCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCg > 1:1673503/1‑71 (MQ=255)
tCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCg < 1:3532614/70‑1 (MQ=255)
tCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCg < 1:3109076/70‑1 (MQ=255)
aaGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCt < 1:2208429/70‑1 (MQ=255)
gTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTAtct > 1:96631/1‑71 (MQ=255)
aaaaaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCg > 1:3219976/1‑71 (MQ=255)
aaaaaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCg > 1:1910514/1‑71 (MQ=255)
aaaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCt > 1:779310/1‑71 (MQ=255)
aaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCt > 1:862898/1‑70 (MQ=255)
aaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTc < 1:1047455/71‑1 (MQ=255)
aaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTc < 1:931296/71‑1 (MQ=255)
aaCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTc < 1:682887/71‑1 (MQ=255)
aCAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCa < 1:2487190/71‑1 (MQ=255)
cAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCaa < 1:3088575/71‑1 (MQ=255)
aGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCaa > 1:3294792/1‑70 (MQ=255)
aGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCaa > 1:1130023/1‑70 (MQ=255)
aaCACATTTGAGATTACATTGAAAACTGGAGGTCTTGGCTGTAACGTGCATCGCTATCTCGCTCAATAAgg < 1:2945443/71‑1 (MQ=255)
aaCACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCAATAAgg < 1:61485/71‑1 (MQ=255)
acacATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCAATAAggc < 1:1421602/71‑1 (MQ=255)
|
CAGAGTGCTGTCATCCATCCATTTTTCATGAGTAAACTGCGACTCTTTTTCAAGGTAAAAACAGTAAACACATTTGAGATTACATTGAAAACTGGAGGGCTTGGCTGTAACGTGCATCGCTATCTCGCTCAATAAGGC > minE/965777‑965914
|
| 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
