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 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
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%
| 178.1
/ NA
| 50 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (26/24); total (26/24) |
| 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%
| 179.7
/ NA
| 50 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (26/24); total (26/24) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAAC > minE/1891952‑1892077
||
tGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagc > 1:1047407/1‑68 (MQ=255)
ggCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:1955057/1‑67 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:2597459/1‑66 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:3258401/1‑66 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:2117323/1‑66 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:3554526/1‑71 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:1437763/1‑71 (MQ=255)
aaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTTAACATATCAGCTAAGCACAGAACCgg > 1:1361267/1‑71 (MQ=255)
aaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:586412/1‑68 (MQ=255)
aaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCggg < 1:1302965/71‑1 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:845026/1‑66 (MQ=255)
gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc > 1:736751/1‑71 (MQ=255)
gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc > 1:1339007/1‑71 (MQ=255)
gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:2114789/71‑1 (MQ=255)
attcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATaa < 1:1816006/71‑1 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGa < 1:2796977/54‑1 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGa < 1:3157930/54‑1 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGa < 1:1942245/54‑1 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:1419959/1‑70 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:1879036/1‑70 (MQ=255)
cAGCACCGCTAAAACGACATTTACAGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:3616899/1‑70 (MQ=255)
gCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGt < 1:174348/71‑1 (MQ=255)
gCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGt < 1:1132364/71‑1 (MQ=255)
cGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc < 1:1931018/71‑1 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgcg > 1:1013112/1‑71 (MQ=255)
cTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt < 1:2316536/71‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:1296011/71‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtc < 1:1383438/69‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:2247141/1‑68 (MQ=255)
aagACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:2978533/3‑66 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:1773647/1‑66 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCAt < 1:2976698/71‑1 (MQ=255)
gACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc < 1:2529721/62‑1 (MQ=255)
gACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc < 1:1709083/62‑1 (MQ=255)
cATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:3215185/1‑62 (MQ=255)
cATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:3014195/1‑62 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:1695954/49‑1 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:258177/49‑1 (MQ=255)
ttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa > 1:937765/1‑47 (MQ=255)
aCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc > 1:2234444/1‑40 (MQ=255)
aCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:2142315/1‑59 (MQ=255)
aCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGa > 1:3274914/1‑71 (MQ=39)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGAtt < 1:1676588/71‑1 (MQ=255)
gctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg > 1:1357927/1‑62 (MQ=38)
gctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTg < 1:2417897/71‑1 (MQ=39)
gctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTg < 1:217339/71‑1 (MQ=39)
ctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:3724451/1‑44 (MQ=37)
ctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:1075146/1‑44 (MQ=37)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc > 1:2053972/1‑57 (MQ=255)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGCCCTGATTGtt > 1:2822935/1‑70 (MQ=255)
cgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGtt > 1:3064958/1‑70 (MQ=38)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGttt < 1:3363650/70‑1 (MQ=38)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGtt < 1:529233/69‑1 (MQ=255)
ctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGt < 1:2722227/67‑1 (MQ=255)
aaCATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAAc < 1:1926956/69‑1 (MQ=38)
||
TGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAAC > minE/1891952‑1892077
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
