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 F1 I2 R1
|
524 |
31.4 |
1748232 |
97.8% |
1709770 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,022,455 |
G→A |
E380E (GAG→GAA) |
xdhD → |
fused putative xanthine/hypoxanthine oxidase: molybdopterin‑binding subunit and Fe‑S binding subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,022,455 | 0 | G | A | 97.3%
| 126.7
/ NA
| 37 | E380E (GAG→GAA) | xdhD | fused putative xanthine/hypoxanthine oxidase: molybdopterin‑binding subunit and Fe‑S binding subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (15/21); total (15/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAAAAATATCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAGCGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACTCGTATGGACGGC > NC_000913/3022377‑3022527
|
cAAAAATATCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACg < 1:523282/81‑1 (MQ=255)
aaaaTATCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGaa > 2:523316/1‑81 (MQ=255)
aaTATCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAAcc < 2:523283/81‑1 (MQ=255)
atatCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCt < 2:523284/81‑1 (MQ=255)
tatCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCta < 1:523285/81‑1 (MQ=255)
tCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAGCGAACCtat < 2:523286/80‑1 (MQ=255)
tCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCtata < 1:523288/81‑1 (MQ=255)
tCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCtat < 1:523287/80‑1 (MQ=255)
ccgccAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACt < 2:523289/81‑1 (MQ=255)
ccAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCaa < 2:523290/81‑1 (MQ=255)
ccAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCaa > 1:523337/1‑81 (MQ=255)
aGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACg < 1:523291/81‑1 (MQ=255)
cATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAgc < 1:523292/80‑1 (MQ=255)
cATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAgc < 1:523293/80‑1 (MQ=255)
aTGGTCATATTGGCGATATGTACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAgcg > 2:523306/1‑80 (MQ=255)
gTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCgcag > 2:523336/1‑80 (MQ=255)
atTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGc > 2:523319/1‑81 (MQ=255)
ggCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGccc > 1:523325/1‑80 (MQ=255)
gCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCg < 2:523294/80‑1 (MQ=255)
atGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGa > 2:523328/1‑80 (MQ=255)
ggACAAAGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGaaa > 1:523341/1‑80 (MQ=255)
aaGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACata < 1:523295/81‑1 (MQ=255)
aGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACatat < 1:523297/81‑1 (MQ=255)
aGGCTTTGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACatat < 1:523296/81‑1 (MQ=255)
cTTTGCCGATGACGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTg > 2:523348/1‑81 (MQ=255)
tttGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGc > 1:523331/1‑81 (MQ=255)
ttGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCt > 2:523335/1‑81 (MQ=255)
ttGCCGATGCCGATGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCt > 2:523347/1‑81 (MQ=255)
tgccgatgccgaTGTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCt < 2:523298/80‑1 (MQ=255)
ccgatgccgatgTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCttt < 2:523299/80‑1 (MQ=255)
ccgatgccgatgTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCttt < 1:523300/80‑1 (MQ=255)
gatgccgatgTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACt > 1:523333/1‑81 (MQ=255)
tgccgatgTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATTTCTGCTTTACTCg < 2:523301/81‑1 (MQ=255)
tgccgatgTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACTCg > 1:523343/1‑81 (MQ=255)
atgTGATCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACTCGTATgg < 2:523302/81‑1 (MQ=255)
aTCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACTCGTATGGACGGc > 1:523361/1‑81 (MQ=255)
aTCATTGAACGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACTCGTATGGACGGc < 1:523303/81‑1 (MQ=255)
|
CAAAAATATCGCCGCCAGTATTCATGGTCATATTGGCGATATGGACAAAGGCTTTGCCGATGCCGATGTGATCATTGAGCGAACCTATAACTCAACGCAAGCGCAGCAGTGCCCGACTGAAACACATATCTGCTTTACTCGTATGGACGGC > NC_000913/3022377‑3022527
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
