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 |
2,014,008 |
T→C |
54.2% |
intergenic (‑5/+2) |
exbD ← / ← exbB |
membrane spanning protein in TonB‑ExbB‑ExbD complex/membrane spanning protein in TonB‑ExbB‑ExbD complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,014,008 | 0 | T | C | 54.2%
| 5.0
/ 38.5
| 51 | intergenic (‑5/+2) | exbD/exbB | membrane spanning protein in TonB‑ExbB‑ExbD complex/membrane spanning protein in TonB‑ExbB‑ExbD complex |
| Reads supporting (aligned to +/- strand): ref base T (6/17); new base C (18/9); total (25/26) |
| Fisher's exact test for biased strand distribution p-value = 5.40e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
CACGTTGATATCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAG > minE/2013944‑2014075
|
cACGTTGATATCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta < 1:2033038/69‑1 (MQ=255)
cACGTTGATATCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta < 1:1916164/69‑1 (MQ=255)
cACGTTGATATCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta < 1:1856769/69‑1 (MQ=255)
aCGTTGATATCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtattat > 1:607003/1‑69 (MQ=255)
tCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGt < 1:552137/69‑1 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:2973099/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:3005809/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:2285271/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:2196410/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:2185360/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:3416119/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:377021/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:521292/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:1645949/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:877743/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:577900/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatta > 1:1307452/1‑50 (MQ=255)
tCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGAtatt > 1:3139784/1‑49 (MQ=255)
gtcgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAAc > 1:322360/1‑69 (MQ=255)
gtcgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAAc > 1:2319648/1‑69 (MQ=255)
gtcgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAAc > 1:1322779/1‑69 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:2439881/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:3407145/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:2249768/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:692533/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:3423653/69‑1 (MQ=255)
gAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:1876626/68‑1 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACg > 1:1626561/1‑62 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:3162929/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:3131535/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2556039/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2843410/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2850078/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2886301/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1001794/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2551921/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1658140/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:234267/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2236872/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1341580/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1347871/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1436332/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1750292/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:51551/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1694793/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGAAATTATc > 1:3025965/1‑37 (MQ=37)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:311711/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:379593/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:1140723/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:1189063/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:2679952/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:2587099/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:2562140/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:228451/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:137561/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:1662003/68‑1 (MQ=255)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2889443/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:76530/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:122149/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:1563156/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:467569/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2139418/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2143550/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:243333/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2955377/41‑1 (MQ=25)
tGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTg > 1:1731907/1‑69 (MQ=255)
tGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTg > 1:1696644/1‑69 (MQ=255)
tGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTg > 1:796282/1‑69 (MQ=255)
atatTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAg < 1:182134/69‑1 (MQ=255)
atatTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAg < 1:1266925/69‑1 (MQ=255)
tattatCCTGCGCGTAATTTTTGTGCGACACTAACCg < 1:2591879/37‑1 (MQ=255)
|
CACGTTGATATCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAG > minE/2013944‑2014075
|
| 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
