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 |
|
A6 F1 I0 R2
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,892,019:1 |
+GC |
100% |
intergenic (‑437/+54) |
gudP ← / ← ygdL |
predicted D‑glucarate transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,892,019 | 1 | . | G | 100.0%
| 210.5
/ NA
| 60 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (19/41); total (19/41) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 1,892,019 | 2 | . | C | 100.0%
| 208.6
/ NA
| 60 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (19/41); total (19/41) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGT > minE/1891953‑1892072
||
ggCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:3243778/1‑67 (MQ=255)
ggCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:2319323/1‑67 (MQ=255)
ggCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:2284766/1‑67 (MQ=255)
ggCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagc > 1:1021943/1‑67 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:3479105/1‑66 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct < 1:4616267/69‑4 (MQ=255)
ccTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGa < 1:4203993/71‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:596780/70‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:3405244/70‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:2517624/70‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:2674983/70‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg > 1:3434423/1‑71 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg > 1:2256463/1‑71 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg > 1:3115388/1‑71 (MQ=255)
aaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCgg < 1:518472/71‑1 (MQ=255)
attcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCg < 1:4189847/71‑1 (MQ=255)
cgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:1824193/70‑1 (MQ=255)
cgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:1920085/70‑1 (MQ=255)
cgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:2282658/70‑1 (MQ=255)
cgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:1399967/70‑1 (MQ=255)
ttcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt > 1:4846794/1‑68 (MQ=255)
ttcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt > 1:942911/1‑68 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa < 1:2575501/70‑1 (MQ=255)
aaaaCGGCATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa > 1:670825/1‑57 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCgg > 1:2688104/1‑49 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcg > 1:2599723/1‑66 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:4972076/1‑71 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtc > 1:2932908/1‑70 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:1704781/71‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:4618371/71‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:2011673/71‑1 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTACGCACAGAACCg > 1:4619551/1‑46 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCa > 1:52402/1‑71 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc > 1:568446/1‑71 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc < 1:4239018/71‑1 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc > 1:3480084/1‑71 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc < 1:3356810/71‑1 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc < 1:2538763/71‑1 (MQ=255)
aCATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg < 1:1804166/71‑1 (MQ=255)
aCATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg < 1:2513307/71‑1 (MQ=255)
tttCCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:1816485/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAAc < 1:2441151/37‑1 (MQ=25)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAAc < 1:2076340/37‑1 (MQ=25)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAAc < 1:874808/37‑1 (MQ=25)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAAc < 1:4680449/37‑1 (MQ=25)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:4529556/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:2849025/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:304020/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:881375/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:2683892/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:3688164/55‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:2114002/55‑1 (MQ=255)
ttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCa > 1:5158971/1‑63 (MQ=255)
ttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCt > 1:2060506/1‑71 (MQ=39)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:3274483/1‑49 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:3471539/1‑60 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:2918064/1‑60 (MQ=255)
ctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGt < 1:3101642/71‑1 (MQ=255)
tcgctGAACATATCAGCTAAGCACAGACCCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGt < 1:2782315/70‑1 (MQ=255)
tcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGt < 1:3936276/70‑1 (MQ=255)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:840843/39‑1 (MQ=37)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:1059162/39‑1 (MQ=37)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:1468492/39‑1 (MQ=37)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:4824030/39‑1 (MQ=37)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:4068402/39‑1 (MQ=37)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt < 1:2766192/45‑1 (MQ=255)
||
GGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGT > minE/1891953‑1892072
|
| 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
