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 |
995,650 |
T→A |
40.0% |
A202A (GCA→GCT) |
dgsA ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 995,650 | 0 | T | A | 40.0%
| 19.5
/ 40.9
| 45 | A202A (GCA→GCT) | dgsA | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base T (14/13); new base A (10/8); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.66e-01 |
CCACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTATGCTGCTCCAG > minE/995583‑995712
|
ccACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTg < 1:1355555/69‑1 (MQ=255)
cACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGc > 1:988553/1‑69 (MQ=255)
cACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGc > 1:30913/1‑69 (MQ=255)
cACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGc > 1:2639474/1‑69 (MQ=255)
cACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGc > 1:1572331/1‑69 (MQ=255)
cACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGc > 1:2143177/1‑69 (MQ=255)
aCGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGcc < 1:1309439/69‑1 (MQ=255)
aCGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGcc < 1:104656/69‑1 (MQ=255)
aCGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGcc < 1:199796/69‑1 (MQ=255)
aCGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGcc < 1:2051175/69‑1 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:2523630/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:823349/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:724347/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:3067753/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:2714111/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:224069/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:1406287/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:1129978/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:1551663/1‑68 (MQ=255)
gtgATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCAGCCATCg > 1:1683581/1‑68 (MQ=255)
cTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGCCATCATCCATGCGCTGATATc > 1:689809/1‑69 (MQ=255)
gAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGACCTCTGCCATCGTCCATGCGCTGATATCAt > 1:2081404/1‑69 (MQ=255)
aTCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGaa < 1:2666086/68‑1 (MQ=255)
aTCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGaa < 1:2670033/68‑1 (MQ=255)
tCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGaa < 1:510121/67‑1 (MQ=255)
cccGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCgg < 1:816846/69‑1 (MQ=255)
cccGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCgg < 1:289950/69‑1 (MQ=255)
ggCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCgg < 1:593992/68‑1 (MQ=255)
aaCAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc < 1:1152642/69‑1 (MQ=255)
cAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc > 1:1309908/1‑67 (MQ=255)
cAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc > 1:2124110/1‑67 (MQ=255)
cAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc > 1:667555/1‑67 (MQ=255)
cAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc > 1:14091/1‑67 (MQ=255)
cAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc > 1:263199/1‑67 (MQ=255)
cAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTAtgctgc > 1:2200424/1‑67 (MQ=255)
aaGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTATGCTGCTc > 1:188507/1‑68 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:3270703/69‑1 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:3076848/69‑1 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:546991/69‑1 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:2946011/69‑1 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:1945784/69‑1 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:1134257/69‑1 (MQ=255)
aGGCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:249197/69‑1 (MQ=255)
ggCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTATGCTGCTCCAg < 1:443402/69‑1 (MQ=255)
ggCCTCAGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGTACGCCGGTATGCTGCTCCa < 1:508304/68‑1 (MQ=255)
|
CCACGTTGTGATCGATAACCACCTGAATCACATCGCGCGCCCCGCGTGAGGCACCAAACAAGGCCTCTGCCATCGTCCATGCGCTGATATCATGCTGAATATAAACCGGAACGCCGGTATGCTGCTCCAG > minE/995583‑995712
|
| 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
