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 |
|
A2 F1 I0 R2
|
230 |
93.6 |
4701257 |
96.3% |
4527310 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
379,337 |
A→G |
63.9% |
V24A (GTT→GCT) |
fepB ← |
iron‑enterobactin transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 379,337 | 0 | A | G | 63.9%
| 61.1
/ 55.5
| 61 | V24A (GTT→GCT) | fepB | iron‑enterobactin transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (5/17); new base G (17/22); total (22/39) |
| Fisher's exact test for biased strand distribution p-value = 1.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGCTGGCTTTCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCGGGGCGAGTCTCA > minE/379270‑379406
|
cGGCTGGCTTTCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCt < 1:1708423/70‑1 (MQ=255)
ctggctTTCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTg < 1:177603/68‑1 (MQ=255)
gctTTCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGc < 1:3705914/69‑1 (MQ=255)
gctTTCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCt < 1:889018/70‑1 (MQ=255)
tCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTAtt < 1:3583510/69‑1 (MQ=255)
tCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTcc > 1:491600/1‑71 (MQ=255)
tgtATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGa < 1:2961034/69‑1 (MQ=255)
tATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAg > 1:1208136/1‑70 (MQ=255)
tgtgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaa < 1:2734376/71‑1 (MQ=255)
tgtgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCaa < 1:1933877/71‑1 (MQ=255)
tgtgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCa < 1:2615257/70‑1 (MQ=255)
tgtgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTAAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCa > 1:3855081/1‑70 (MQ=255)
tgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaaaa < 1:2673455/71‑1 (MQ=255)
tgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTcc < 1:4057626/60‑1 (MQ=255)
tgtgCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTcc < 1:684474/60‑1 (MQ=255)
ccACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaaaa > 1:340777/1‑67 (MQ=255)
ccACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTc > 1:4358973/1‑70 (MQ=255)
cACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCt > 1:2959397/1‑71 (MQ=255)
aCGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTg < 1:1956813/71‑1 (MQ=255)
ggCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGtt < 1:1872098/71‑1 (MQ=255)
ggCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGtt < 1:3203485/71‑1 (MQ=255)
ggCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGt > 1:2996739/1‑70 (MQ=255)
ggCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGtt < 1:2898766/71‑1 (MQ=255)
tCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATa < 1:3303396/70‑1 (MQ=255)
tCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCt < 1:662835/63‑1 (MQ=255)
tCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAg < 1:4502131/71‑1 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAg > 1:3550602/1‑69 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGaa < 1:3173848/71‑1 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGaa < 1:187181/71‑1 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAg > 1:814149/1‑69 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAg > 1:1032558/1‑69 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGa < 1:1230193/70‑1 (MQ=255)
aGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGa < 1:3147529/70‑1 (MQ=255)
aTCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAggg < 1:314731/70‑1 (MQ=255)
aTCTGACGCGGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGc > 1:1890712/1‑71 (MQ=255)
cgcgGCCAGTCAGAGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCg > 1:3657211/1‑71 (MQ=255)
gcgGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCgg < 1:882741/71‑1 (MQ=255)
cgGCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaa < 1:266538/42‑1 (MQ=255)
ggCCAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAg < 1:3200664/56‑1 (MQ=255)
ggCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGt < 1:4409131/50‑1 (MQ=255)
ccAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaa < 1:1066245/39‑1 (MQ=255)
cAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAg < 1:4337081/56‑1 (MQ=255)
cAGTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTag > 1:680094/1‑69 (MQ=255)
gTCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTaa < 1:2529581/48‑1 (MQ=255)
tCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaa < 1:2697974/35‑1 (MQ=255)
tCAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGtt < 1:3721760/45‑1 (MQ=255)
tCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCaa < 1:1787638/35‑1 (MQ=255)
cAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATa > 1:2951213/1‑48 (MQ=255)
cAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAg < 1:2844957/49‑1 (MQ=255)
cAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCggg > 1:3807870/1‑71 (MQ=255)
cAGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCggg > 1:327140/1‑71 (MQ=255)
aGCGGCCTGAGCTGCGGCTATTCCTGAAAGCaaaa > 1:4487705/1‑35 (MQ=255)
aGCGGCCTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCg > 1:272489/1‑55 (MQ=255)
aGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCgggg > 1:1418299/1‑71 (MQ=255)
gCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCGGGGc < 1:2165633/71‑1 (MQ=255)
gCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGtt < 1:3468339/39‑1 (MQ=255)
ccTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATa < 1:1939636/42‑1 (MQ=255)
cTGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCGGGGCGAg > 1:364784/1‑69 (MQ=255)
cTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTaa > 1:412212/1‑39 (MQ=255)
tGAGCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGt < 1:560093/55‑1 (MQ=255)
tGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTaa > 1:1007040/1‑38 (MQ=255)
aaCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTaga > 1:3625871/1‑56 (MQ=255)
aaCTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCGGGGCGAGTCTca > 1:2715094/1‑71 (MQ=255)
|
CGGCTGGCTTTCCAGTGTATGTGTGCCACGGCTGTCAGTAATCTGACGCGGCCAGTCAGCGGCCTGAACTGCGGCTATTCCTGAAAGCAAAAGTCCTGTTAATAGAAGGGCGTTGCGGTAGAGCGGGGCGAGTCTCA > minE/379270‑379406
|
| 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
