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 |
2,770,615 |
A→C |
33.7% |
intergenic (+208/‑61) |
metA → / → aceB |
homoserine transsuccinylase/malate synthase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,770,615 | 0 | A | C | 33.7%
| 70.7
/ 74.3
| 95 | intergenic (+208/‑61) | metA/aceB | homoserine transsuccinylase/malate synthase A |
| Reads supporting (aligned to +/- strand): ref base A (39/24); new base C (27/5); total (66/29) |
| Fisher's exact test for biased strand distribution p-value = 3.34e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.78e-01 |
TTAAAATGGAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGA > minE/2770549‑2770679
|
ttaaAATGGAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAagag < 1:228907/68‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:1917575/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:2171884/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:1466506/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:165073/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:81681/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:261734/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:2672552/69‑1 (MQ=255)
ggAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:27565/69‑1 (MQ=255)
aaaTTGTTTTTGATTTTGCATTTTAAATGAGTAGGCTTAGTTGTGCTGAACGAAAAGAGCACAACGa < 1:463093/67‑1 (MQ=255)
tttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt < 1:254718/69‑1 (MQ=255)
tttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt < 1:1953296/69‑1 (MQ=255)
tttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt < 1:85161/69‑1 (MQ=255)
tttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt < 1:2295306/69‑1 (MQ=255)
tttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt < 1:2771939/69‑1 (MQ=255)
tatAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt < 1:244672/67‑1 (MQ=255)
ttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt > 1:3367720/1‑68 (MQ=255)
ttAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGt > 1:1435446/1‑68 (MQ=255)
aaTGAGTAGTCTTAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGtttt < 1:2113756/68‑1 (MQ=255)
aaTGAGTAGTCTTAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGtttt < 1:3047034/68‑1 (MQ=255)
aaTGAGTAGTCTTAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGtttt < 1:1528811/68‑1 (MQ=255)
aaTGAGTAGTCTTAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGtttt < 1:640078/68‑1 (MQ=255)
aaTGAGTAGTCTTAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGtttt < 1:2523449/68‑1 (MQ=255)
tagtCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATc < 1:2408225/68‑1 (MQ=255)
tagtCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATc < 1:1918824/68‑1 (MQ=255)
tagtCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATc < 1:1059159/68‑1 (MQ=255)
tagtCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATc < 1:1178328/68‑1 (MQ=255)
tagtCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATc < 1:1170388/68‑1 (MQ=255)
tagtCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACACTGGGGAAGTTTTCGGATc < 1:2507956/68‑1 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCg > 1:2776338/1‑38 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGt > 1:3198266/1‑46 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGAt > 1:1556981/1‑62 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1192858/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2585741/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2616290/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1025069/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2678341/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1134138/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2894563/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:3126911/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2931893/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:3096956/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2988840/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:3039369/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2561452/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:966830/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:458895/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:703198/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1650278/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:655192/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1523416/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1379133/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:470151/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:706565/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:54354/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGCGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:738616/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTTGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1848255/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:3181199/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:3206747/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:783553/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:818969/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:87510/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:966952/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:3258602/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2467395/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1383904/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2136267/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1260796/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:1239869/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATg > 1:2901757/1‑67 (MQ=255)
ttAGTTGTGCTGAACGAAAAGAGAACAACGATCCTTCGTTCACAGCGGGGAAGTTTTCGGATCCATg > 1:2822971/1‑67 (MQ=255)
ttGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACgag < 1:2533053/68‑1 (MQ=255)
ttGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACgag < 1:634514/68‑1 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:3037341/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:2850412/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:1830292/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:654147/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:1276092/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:2309764/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:3127463/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:3152043/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:2393450/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:123856/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCgg > 1:1220464/1‑54 (MQ=255)
gtgCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACgag < 1:3383088/66‑1 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATg > 1:892988/1‑67 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:117460/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:1351943/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:1468616/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:2269647/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:542476/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:491349/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:2580720/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:2662104/1‑68 (MQ=255)
aaGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGa > 1:2795838/1‑68 (MQ=255)
aaGAGCACAACGATCCTTAGTTCACAGTGGGGAAGATTTCTGATc > 1:2968002/1‑45 (MQ=255)
|
TTAAAATGGAAATTGTTTTTGATTTTGCATTTTAAATGAGTAGTCTTAGTTGTGCTGAACGAAAAGAGCACAACGATCCTTCGTTCACAGTGGGGAAGTTTTCGGATCCATGACGAGGAGCTGCACGATGA > minE/2770549‑2770679
|
| 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
