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 |
2,177,633 |
A→G |
42.4% |
D162D (GAT→GAC) |
arcB ← |
hybrid sensory histidine kinase in two‑component regulatory system with ArcA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,177,633 | 0 | A | G | 42.4%
| 16.6
/ 49.2
| 66 | D162D (GAT→GAC) | arcB | hybrid sensory histidine kinase in two‑component regulatory system with ArcA |
| Reads supporting (aligned to +/- strand): ref base A (18/20); new base G (11/17); total (29/37) |
| Fisher's exact test for biased strand distribution p-value = 6.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTCTCT > minE/2177575‑2177687
|
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:730423/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:65360/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:827035/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:2978874/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:2832909/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:2258311/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:1823646/69‑1 (MQ=255)
ggTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:837850/69‑1 (MQ=255)
gTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:2489530/68‑1 (MQ=255)
aCAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAggaaggaa > 1:619428/1‑67 (MQ=255)
aCAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAAc > 1:196527/1‑68 (MQ=255)
aCAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTAGGGTGAAGCATCAAGGAAGGAAc > 1:2517176/1‑68 (MQ=255)
aCAACCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAggaaggaa > 1:3263247/1‑67 (MQ=255)
cGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGa < 1:861806/69‑1 (MQ=255)
cGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGa < 1:2562171/69‑1 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCa > 1:1926377/1‑43 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGaa > 1:3079641/1‑63 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg < 1:2455472/67‑1 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:2421247/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg < 1:744917/67‑1 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:364704/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:1101742/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:2779768/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg < 1:2802299/67‑1 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:2804375/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:3038456/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:3208582/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg < 1:241127/67‑1 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg < 1:1787703/67‑1 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:1692263/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:1924469/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:1971489/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:2064573/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:1604980/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg > 1:564110/1‑67 (MQ=255)
ctctTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAg < 1:2371504/67‑1 (MQ=255)
aCGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:2134847/38‑1 (MQ=255)
aCGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:613991/38‑1 (MQ=255)
aCGATAAAAAACCAGGTCGGGTGAAGCATCaaggaagg < 1:1531206/38‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:3307725/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:652663/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:3257149/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:1248099/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:738704/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:957731/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:3175429/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:828018/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:2804072/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:2734492/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:2559586/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:2338574/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:2263033/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:221281/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:2099648/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:1971056/68‑1 (MQ=255)
aaaCCAGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTtgt < 1:1657570/68‑1 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTg > 1:847118/1‑56 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAAt > 1:2267433/1‑59 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:2687690/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:53458/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:385249/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:3049562/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:304684/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:1672298/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:1583861/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:1581642/1‑69 (MQ=255)
aGGTCGGGTGAAGCGTCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTctct > 1:1215270/1‑69 (MQ=255)
|
GGTTACAGCCGGAAAACTCTTTATCTTCGTTACGATAAAAAACCAGGTCGGGTGAAGCATCAAGGAAGGAACGTAAGAATGAGGATTGCTGCTCGAGCTGAATTTGTGTCTCT > minE/2177575‑2177687
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
