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 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,525,136 |
A→G |
47.7% |
G79G (GGT→GGC) |
yfcJ ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,525,136 | 0 | A | G | 47.7%
| ‑1.9
/ 56.9
| 65 | G79G (GGT→GGC) | yfcJ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (29/5); new base G (19/12); total (48/17) |
| Fisher's exact test for biased strand distribution p-value = 4.66e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.94e-01 |
AGCAACGCGCCGCCAGCCAGACCACAAGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGA > minE/1525077‑1525196
|
agcaACGCGCCGCCAGCCAGACCACAAGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGa > 1:310256/1‑69 (MQ=255)
agcaACGCGCCGCCAGCCAGACCACAAGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGa > 1:88634/1‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:3287439/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:1175392/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:2201914/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:1005381/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:3066933/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:839512/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:1611927/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:178129/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:1621707/2‑69 (MQ=255)
cgccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGcc > 1:1635898/2‑68 (MQ=255)
ccccagACCACAAGCTAACATCCCCTGAAGCGCCGAACGTTTTGCGCCATATTGATCGGCCAGTCGccc > 1:2794662/3‑69 (MQ=255)
cacaAGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAAc < 1:1455429/69‑1 (MQ=255)
cacaAGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAAc < 1:549107/69‑1 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGt > 1:1875075/1‑52 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGt > 1:2230022/1‑62 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:2331324/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:2823977/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:3435307/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:2776221/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:311252/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:493424/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:2507103/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:2335186/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:631955/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:1521287/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTa > 1:2250047/1‑63 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCAcg > 1:910980/1‑69 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCAcg > 1:124354/1‑69 (MQ=255)
aGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCAc > 1:2777646/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:2561084/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:2764059/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:559303/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:3291333/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:897934/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:719364/1‑68 (MQ=255)
cccTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCAc > 1:2547747/1‑68 (MQ=255)
tGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa < 1:702783/69‑1 (MQ=255)
tGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa < 1:328305/69‑1 (MQ=255)
tGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa < 1:1809117/69‑1 (MQ=255)
gAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa > 1:3296360/1‑68 (MQ=255)
gAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa > 1:2287443/1‑68 (MQ=255)
gAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa > 1:2004137/1‑68 (MQ=255)
gAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTa > 1:2767400/1‑68 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:821370/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:47380/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:2685108/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:3033347/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:1068847/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:1444288/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:1504492/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:1618393/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:2299910/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:2681211/69‑1 (MQ=255)
cGTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:2986420/69‑1 (MQ=255)
gTTTTGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGa < 1:1525986/68‑1 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGaaa > 1:2125560/1‑62 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAAc > 1:2446294/1‑63 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACt > 1:496288/1‑64 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACt > 1:2482217/1‑64 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACt > 1:1654766/1‑64 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACt > 1:2886469/1‑64 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACt > 1:3372236/1‑64 (MQ=255)
tttGCGCCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACt > 1:3206975/1‑64 (MQ=255)
|
AGCAACGCGCCGCCAGCCAGACCACAAGCTAACATTCCCTGAAGCGCCGAACGTTTTGCACCATATTGATCGGCCAGTCGCCCGGCGTAACCACGCGTCAGCACCGTAGCCAGAAACTGA > minE/1525077‑1525196
|
| 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
