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 |
2,001,040 |
C→T |
25.8% |
A81A (GCG→GCA) |
gss ← |
fused glutathionylspermidine amidase and glutathionylspermidine synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,001,040 | 0 | C | T | 25.8%
| 91.9
/ 26.4
| 77 | A81A (GCG→GCA) | gss | fused glutathionylspermidine amidase and glutathionylspermidine synthetase |
| Reads supporting (aligned to +/- strand): ref base C (39/18); new base T (7/13); total (46/31) |
| Fisher's exact test for biased strand distribution p-value = 1.58e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACG > minE/2000974‑2001106
|
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:2331084/69‑1 (MQ=255)
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:44620/69‑1 (MQ=255)
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:1161286/69‑1 (MQ=255)
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:160150/69‑1 (MQ=255)
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:681924/69‑1 (MQ=255)
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:2587500/69‑1 (MQ=255)
tGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc < 1:1530490/69‑1 (MQ=255)
gCAGGATGTTGTCATTTACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCAc > 1:3069447/1‑67 (MQ=255)
gCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCAc > 1:312684/1‑67 (MQ=255)
gCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCAc > 1:3118337/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:91481/1‑53 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:911761/1‑53 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:857385/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:1028418/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:608032/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:3191853/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:350201/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:381694/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:1679859/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:1641074/1‑67 (MQ=255)
aTGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:1554504/1‑67 (MQ=255)
tgttgtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:1305184/1‑66 (MQ=255)
tgttgtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:1346954/1‑66 (MQ=255)
tgttgtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:2960428/1‑66 (MQ=255)
tgttgtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:282534/1‑66 (MQ=255)
tgttgtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAg > 1:2563893/1‑66 (MQ=255)
gtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:881024/1‑48 (MQ=255)
gtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:344468/1‑48 (MQ=255)
gtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:2648724/1‑48 (MQ=255)
gtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:670023/1‑48 (MQ=255)
gtCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:361418/1‑48 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCATGTCAGTGAAGACtaca > 1:2939684/4‑69 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCACGTCAGTGAAGACtaca > 1:1632361/4‑69 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCACGTCAGTGAAGACtaca > 1:862634/4‑69 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCACGTCAGTGAAGACtaca > 1:3115607/4‑69 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCACGTCAGTGAAGACtaca > 1:639275/4‑69 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCACGTCAGTGAAGACtaca > 1:571920/4‑69 (MQ=255)
ttgaCCACTTCACGCAGGAAGCGCAGTGAGAAAATCTCCCATGCCATACCCACGTCAGTGAAGACtaca > 1:345760/4‑69 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAACTCTCCCACGc > 1:1447918/1‑42 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:2235055/1‑42 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:325304/1‑42 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:964126/1‑42 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:818617/1‑42 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGc > 1:215726/1‑42 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCacac > 1:1958547/1‑68 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCacac > 1:1772547/1‑68 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCacac > 1:3186526/1‑68 (MQ=255)
aaCCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCacac > 1:1086433/1‑68 (MQ=255)
cACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATAcc > 1:3257268/1‑45 (MQ=255)
cGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCa < 1:2064612/67‑1 (MQ=255)
cGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCa < 1:927569/67‑1 (MQ=255)
gAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAaga > 1:2506944/1‑68 (MQ=255)
aaGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAagag > 1:1721002/1‑68 (MQ=255)
aaGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAagag > 1:13784/1‑68 (MQ=255)
aaGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAagag > 1:2108029/1‑68 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:497315/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:687833/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:965294/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:1044477/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:1092644/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:30902/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:1226896/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:2542025/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:2456589/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:1278680/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:1828098/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACGTCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:1779516/59‑1 (MQ=255)
gaAAATCTCCCATGCCATACCCACATCAGTGAAGACTACACCGTAGTTCAGAAAGAGaa < 1:500366/59‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:2159627/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:1257385/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:1471895/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:2075809/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:365229/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:2591575/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:2972366/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:3101310/68‑1 (MQ=255)
aCGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACg < 1:3204295/68‑1 (MQ=255)
|
TGCCTGCAATGGCAGGATGTTGTCATTAACCACTTCTCGCAGGAAGCGCAGCGAGAAAATCTCCCACGCCATACCCACGTCAGTAAAGACCACACCGTAATTCAGAAAGAGAAAACGGCGAGCAAATTCAACG > minE/2000974‑2001106
|
| 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
