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 |
2,690,326 |
C→T |
67.3% |
A557V (GCG→GTG) |
yhgE → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,690,326 | 0 | C | T | 67.3%
| 52.9
/ 36.1
| 71 | A557V (GCG→GTG) | yhgE | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (10/13); new base T (16/31); total (27/44) |
| Fisher's exact test for biased strand distribution p-value = 5.99e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACGAAAGAAAAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAGCGC > minE/2690267‑2690389
|
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:1743128/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:2591195/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:2666743/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:2438673/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:225336/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:2708315/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:2162083/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:1688312/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:3080951/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:3192143/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:387508/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:100227/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:1051600/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:86855/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:573825/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGa > 1:1180709/1‑69 (MQ=255)
aaCGAAAGAAAAATTACTCATGGCTGCGGAGGATGGAAAACTGGGGACGAAGCCTAAAGAGTGGCGCGa > 1:2214219/1‑69 (MQ=255)
aagaaaAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTg < 1:401242/69‑1 (MQ=255)
aagaaaAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTg < 1:2673579/69‑1 (MQ=255)
aagaaaAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTg < 1:2452524/69‑1 (MQ=255)
aagaaaAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTg < 1:2167602/69‑1 (MQ=255)
aagaaaAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTg < 1:1480468/69‑1 (MQ=255)
aTTACTCACAGCTGCGAAGTATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGa > 1:2914708/1‑69 (MQ=255)
gCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTg < 1:1642984/69‑1 (MQ=255)
ggaGGTTGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2831672/66‑2 (MQ=255)
ggaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2711532/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgt < 1:2025956/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2828724/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2716182/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2713874/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2831932/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:997544/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:637643/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2902185/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:929079/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:56888/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1919095/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2573788/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1631567/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1474194/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1394890/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1636641/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1685038/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1108597/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1769830/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1957731/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1102749/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:197442/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:203958/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2080184/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:2223768/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1057591/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:1023940/66‑2 (MQ=255)
gaGGATGGAAAACTGGGGACGAAGCCTAAACTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:3113384/66‑2 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGa < 1:3119387/67‑1 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGa < 1:2480558/67‑1 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGa < 1:3266874/67‑1 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGa < 1:3435245/67‑1 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGa < 1:3080137/67‑1 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAAt > 1:951716/1‑69 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAAt > 1:1521398/1‑69 (MQ=255)
aaGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAAt > 1:1240197/1‑69 (MQ=255)
gAAAACTGGGGACGAAGCCTAAAGTGTGGCGCGATCTTACGGTGGATGGCGAAAGACTgg < 1:373792/60‑2 (MQ=255)
gAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAAt > 1:2671237/1‑68 (MQ=255)
aaaCTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTg < 1:60526/69‑1 (MQ=255)
aaaCTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTg < 1:1568225/69‑1 (MQ=255)
aaGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAgcgc > 1:2946776/1‑67 (MQ=255)
aaGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAgcgc > 1:2849613/1‑67 (MQ=255)
aaGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAgcgc > 1:275756/1‑67 (MQ=255)
aaGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAgcgc > 1:3264741/1‑67 (MQ=255)
aaGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAgcgc > 1:3140667/1‑67 (MQ=255)
|
AACGAAAGAAAAATTACTCACAGCTGCGAAGGATGGAAAACTGGGGACGAAGCCTAAAGCGTGGCGCGATCTTGTAGTGGATGGTGAAAGGCTGAATGTGAATCTGAATGAGTGACAAAGCGC > minE/2690267‑2690389
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
