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 |
|
A1 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,861,751 |
T→C |
51.4% |
N423S (AAC→AGC) |
lldP ← |
L‑lactate permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,861,751 | 0 | T | C | 51.4%
| 5.3
/ 110.2
| 74 | N423S (AAC→AGC) | lldP | L‑lactate permease |
| Reads supporting (aligned to +/- strand): ref base T (23/13); new base C (11/27); total (34/40) |
| Fisher's exact test for biased strand distribution p-value = 4.77e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGT > W3110S.gb/3861690‑3861818
|
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCTGAATAGTTCGAAATa > 1:1003559/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAAt > 1:1894371/1‑69 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:1031569/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:479976/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:335681/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:1734721/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:76958/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:1625020/1‑70 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATa > 1:1221646/1‑70 (MQ=255)
gAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAgg > 1:169826/1‑71 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:1072193/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:882952/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:1766870/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:810863/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:1371639/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:1374247/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:344037/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:788742/1‑69 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGc > 1:1966859/1‑69 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:731805/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:1084528/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:1947031/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:1712817/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:305291/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:882058/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:115349/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:1575476/57‑1 (MQ=255)
tgCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:138868/57‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:351086/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:472505/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:1840519/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:1224366/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:880555/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:1528227/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:1644490/71‑1 (MQ=255)
gcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:1882575/71‑1 (MQ=255)
ccAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATAcc < 1:237063/70‑1 (MQ=255)
gTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg < 1:1251901/71‑1 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg > 1:671169/1‑71 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg > 1:412260/1‑71 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg > 1:413255/1‑71 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg > 1:415804/1‑71 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:989526/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:881013/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:739292/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:69758/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:82434/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:616998/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:44338/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:1068154/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:440537/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:1050776/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATTCCAGCACCATACCGATGGAGTa < 1:721344/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:1027440/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:1588164/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:684405/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:656845/71‑1 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:494347/71‑1 (MQ=255)
gcgcCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:578307/70‑1 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGc > 1:472024/1‑35 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGc > 1:1138901/1‑35 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGc > 1:1664545/1‑35 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGc > 1:129294/1‑35 (MQ=255)
ttGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATgg > 1:1889159/1‑66 (MQ=255)
ttGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa > 1:894088/1‑69 (MQ=255)
ttGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa > 1:737903/1‑69 (MQ=255)
ttGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa > 1:842707/1‑69 (MQ=255)
ttGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCa > 1:1906624/1‑69 (MQ=255)
aCAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGa > 1:172269/1‑57 (MQ=255)
aCAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGa > 1:195030/1‑57 (MQ=255)
aTAGTTCGAAATAAAGGCGAATGCCAGCACCTTACCGATGGAGTa < 1:473931/45‑1 (MQ=255)
tAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGt < 1:1309812/71‑1 (MQ=255)
tAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGt < 1:1313824/71‑1 (MQ=255)
tAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGt < 1:693400/71‑1 (MQ=255)
|
GGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGCGT > W3110S.gb/3861690‑3861818
|
| 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
