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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,491,067 |
G→A |
68.1% |
V56V (GTG→GTA) |
yjgP → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,491,067 | 0 | G | A | 68.1%
| 83.2
/ 61.7
| 69 | V56V (GTG→GTA) | yjgP | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (6/16); new base A (10/37); total (16/53) |
| Fisher's exact test for biased strand distribution p-value = 7.60e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.17e-01 |
CCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAC > W3110S.gb/4491001‑4491123
|
ccTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:1261350/1‑70 (MQ=255)
ccTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:3630360/1‑70 (MQ=255)
ccTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCg > 1:1621880/1‑70 (MQ=255)
cTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGa < 1:1245073/71‑1 (MQ=255)
ggTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCa < 1:2069349/69‑1 (MQ=255)
tGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa > 1:1309116/1‑71 (MQ=255)
tGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa > 1:2863028/1‑71 (MQ=255)
tGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa > 1:211707/1‑71 (MQ=255)
tGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa > 1:1840221/1‑71 (MQ=255)
gACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa < 1:3545015/70‑1 (MQ=255)
gACGGCGATATTCCGGCGAATCTGGTGCGCTCCCTTCTCGGGTGGGGCGTACCGGAAATGGCGCAGCTTa < 1:2730417/70‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc < 1:2995068/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc < 1:952582/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc < 1:622023/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc < 1:524691/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc < 1:1858292/71‑1 (MQ=255)
cGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc < 1:1149164/71‑1 (MQ=255)
gATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTg > 1:780406/1‑69 (MQ=255)
gATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGc > 1:841333/1‑70 (MQ=255)
gATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGc < 1:847568/70‑1 (MQ=255)
atatTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCa < 1:38172/71‑1 (MQ=255)
atatTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCa < 1:2477036/71‑1 (MQ=255)
atatTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCa < 1:802336/71‑1 (MQ=255)
ttCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:831870/60‑1 (MQ=255)
ttCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:3201168/60‑1 (MQ=255)
ttCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:410552/60‑1 (MQ=255)
ccGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATc > 1:840405/1‑60 (MQ=255)
aTCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTc < 1:494056/71‑1 (MQ=255)
aTCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTc < 1:1983391/71‑1 (MQ=255)
aTCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTc < 1:459207/71‑1 (MQ=255)
aTCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTc < 1:2161631/71‑1 (MQ=255)
aTCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTc < 1:9232/71‑1 (MQ=255)
tCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:1472049/50‑1 (MQ=255)
tCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:638211/50‑1 (MQ=255)
tCTGGTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:2496305/50‑1 (MQ=255)
gTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCGATTAAGCCTGTTCCTCgg < 1:3043776/71‑1 (MQ=255)
gTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTcc < 1:405091/67‑1 (MQ=255)
gTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTcc < 1:3481180/67‑1 (MQ=255)
gTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCgg < 1:2521163/71‑1 (MQ=255)
gTGCTCTCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCgg < 1:606249/71‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa < 1:2071024/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa < 1:2712842/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTa < 1:1057860/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:2198691/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:1427186/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:3694960/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTa < 1:1721763/43‑1 (MQ=255)
ctctCCCTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGgct > 1:2271884/1‑71 (MQ=255)
ccTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGgctgct < 1:2915669/69‑1 (MQ=255)
ccTTCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGgctgct < 1:952518/69‑1 (MQ=255)
ttCTCGGGTTGGGCTTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:2778142/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:435687/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:2134379/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:500220/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:152894/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:3570888/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:3566749/51‑1 (MQ=255)
ttCTCGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGcc < 1:3193130/51‑1 (MQ=255)
ctcGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCAt > 1:1779181/1‑43 (MQ=255)
ctcGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTg > 1:1322692/1‑51 (MQ=255)
ctcGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTg > 1:3437774/1‑51 (MQ=255)
ctcGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTg > 1:2315058/1‑51 (MQ=255)
ctcGGGTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTg > 1:3162872/1‑51 (MQ=255)
gTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:1181764/66‑1 (MQ=255)
gTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:629870/66‑1 (MQ=255)
gTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:2484067/66‑1 (MQ=255)
gTTGGGCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:3111822/66‑1 (MQ=255)
ggCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAc < 1:3123394/62‑1 (MQ=255)
ggCGTACCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCGCGGgctgc < 1:2757982/55‑1 (MQ=255)
|
CCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCCCTTCTCGGGTTGGGCGTGCCGGAAATGGCGCAGCTTATCCTGCCATTAAGCCTGTTCCTCGGGCTGCTGATGAC > W3110S.gb/4491001‑4491123
|
| 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
