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 |
2,014,019 |
G→A |
48.2% |
R242R (CGC→CGT) |
exbB ← |
membrane spanning protein in TonB‑ExbB‑ExbD complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,014,019 | 0 | G | A | 48.2%
| 1.1
/ 47.0
| 56 | R242R (CGC→CGT) | exbB | membrane spanning protein in TonB‑ExbB‑ExbD complex |
| Reads supporting (aligned to +/- strand): ref base G (9/20); new base A (18/9); total (27/29) |
| Fisher's exact test for biased strand distribution p-value = 1.53e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.52e-01 |
TCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAGGTCAC > minE/2013954‑2014080
|
tCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGt < 1:552137/69‑1 (MQ=255)
gtcgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAAc > 1:322360/1‑69 (MQ=255)
gtcgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAAc > 1:1322779/1‑69 (MQ=255)
gtcgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAAc > 1:2319648/1‑69 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:692533/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:3407145/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:2439881/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:3423653/69‑1 (MQ=255)
cgAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:2249768/69‑1 (MQ=255)
gAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCg < 1:1876626/68‑1 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACg > 1:1626561/1‑62 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:234267/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2236872/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2551921/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2843410/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2556039/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2850078/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:2886301/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:3162929/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1750292/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:3131535/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1694793/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1658140/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1436332/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1347871/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1341580/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:51551/1‑63 (MQ=255)
aGGTTTTCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTAATTTTTGTGCGACACGa > 1:1001794/1‑63 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:311711/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:1140723/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:2679952/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:379593/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:2587099/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:2562140/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:228451/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:1189063/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:137561/68‑1 (MQ=255)
ggTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGa < 1:1662003/68‑1 (MQ=255)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:243333/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:76530/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2143550/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2139418/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2889443/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:2955377/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:122149/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:467569/41‑1 (MQ=25)
ttCGTTAAGATGCATCGCCATCGGACATTATCCTGCACGTa < 1:1563156/41‑1 (MQ=25)
tGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTg > 1:796282/1‑69 (MQ=255)
tGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTg > 1:1696644/1‑69 (MQ=255)
tGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTg > 1:1731907/1‑69 (MQ=255)
atatTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAg < 1:1266925/69‑1 (MQ=255)
atatTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAg < 1:182134/69‑1 (MQ=255)
tattatCCTGCGCGTAATTTTTGTGCGACACTAACCg < 1:2591879/37‑1 (MQ=255)
ttatCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAGGTc > 1:1703494/1‑69 (MQ=255)
ttatCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAGGTc > 1:2079072/1‑69 (MQ=255)
atCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAGGTCAc > 1:2591540/1‑69 (MQ=255)
|
TCATGCATTTCGCCGTTATCGTCGAGGTTTTCGTTAAGATGCATTGCCATCGGATATTATCCTGCGCGTAATTTTTGTGCGACACGAACCGGATGCGCAGCGGCGCTGGCTTCCAGATCCAGGTCAC > minE/2013954‑2014080
|
| 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
