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 |
1,817,649 |
T→C |
34.6% |
intergenic (‑138/+7) |
ygaD ← / ← mltB |
conserved hypothetical protein/membrane‑bound lytic murein transglycosylase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,817,649 | 0 | T | C | 34.6%
| 52.1
/ 42.2
| 75 | intergenic (‑138/+7) | ygaD/mltB | conserved hypothetical protein/membrane‑bound lytic murein transglycosylase B |
| Reads supporting (aligned to +/- strand): ref base T (18/31); new base C (13/13); total (31/44) |
| Fisher's exact test for biased strand distribution p-value = 3.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.77e-01 |
TGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGT > minE/1817582‑1817711
|
tGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa < 1:2163415/69‑1 (MQ=255)
tGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa < 1:366070/69‑1 (MQ=255)
tGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa < 1:2045004/69‑1 (MQ=255)
tGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa < 1:1186550/69‑1 (MQ=255)
gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa < 1:1335878/68‑1 (MQ=255)
gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa > 1:768470/1‑68 (MQ=255)
gCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTa < 1:1487174/68‑1 (MQ=255)
aTTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAAt < 1:1446823/68‑1 (MQ=255)
aTTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAAt < 1:2331331/68‑1 (MQ=255)
aTTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAAt < 1:1931906/68‑1 (MQ=255)
ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACt > 1:857203/1‑65 (MQ=255)
ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTcgc > 1:853197/1‑68 (MQ=255)
ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTcgc > 1:2371044/1‑68 (MQ=255)
ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTcgc > 1:750286/1‑68 (MQ=255)
ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTcgc > 1:2755764/1‑68 (MQ=255)
ttCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTcgc > 1:2761288/1‑68 (MQ=255)
cAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCgcgcc > 1:510357/1‑69 (MQ=255)
aaaaGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCgcgccagcgc < 1:177441/69‑1 (MQ=255)
aaaaGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCgcgccagcgc < 1:3356617/69‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCATGGCtt < 1:1899802/67‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCtt < 1:1818623/67‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCtt < 1:2616369/67‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCtt < 1:1477686/67‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCtt < 1:1340276/67‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCtt < 1:1116261/67‑1 (MQ=255)
tAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTAGCGCCAGCGCCACGGCtt < 1:959621/67‑1 (MQ=255)
aGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCgcgccagcgc < 1:528069/58‑1 (MQ=255)
ggAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGc < 1:390289/69‑1 (MQ=255)
ggAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGc < 1:236306/69‑1 (MQ=255)
ggAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGc < 1:1800881/69‑1 (MQ=255)
ggAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGc < 1:214517/69‑1 (MQ=255)
ggAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGc < 1:1298740/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACTCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:1067302/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:3263305/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:3062034/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:1404003/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:294974/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:2807587/69‑1 (MQ=255)
gAAGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:2580614/69‑1 (MQ=255)
aaGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCgcgccagcgc < 1:1908473/48‑1 (MQ=255)
aaGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:2188396/68‑1 (MQ=255)
aaGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:2657551/68‑1 (MQ=255)
aaGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:2371927/68‑1 (MQ=255)
aaGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:572902/68‑1 (MQ=255)
aaGCTCACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:224114/68‑1 (MQ=255)
aGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:502465/1‑69 (MQ=255)
aGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:1702214/1‑69 (MQ=255)
aGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:2862365/1‑69 (MQ=255)
aGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:3211251/1‑69 (MQ=255)
gCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:2609378/1‑68 (MQ=255)
gCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:1510038/1‑68 (MQ=255)
gCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAg > 1:1335522/1‑68 (MQ=255)
gCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGa > 1:2049657/1‑69 (MQ=255)
gCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGa > 1:387798/1‑69 (MQ=255)
gCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGa > 1:172528/1‑69 (MQ=255)
cACGCCCCCCTCTTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCTAACTGcc < 1:2367887/63‑1 (MQ=255)
gCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGc < 1:3037622/67‑1 (MQ=255)
ctctTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGt < 1:1556406/69‑1 (MQ=255)
ctctTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGt < 1:1450976/69‑1 (MQ=255)
ctctTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGt < 1:3313987/69‑1 (MQ=255)
ctctTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGt < 1:695141/69‑1 (MQ=255)
ctctTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGt < 1:70044/69‑1 (MQ=255)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTcc > 1:2631916/1‑44 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:661538/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:2154800/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:2137442/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:233472/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:2346581/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:721043/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:1030809/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:203348/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:1843265/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:2814402/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:2146073/1‑45 (MQ=25)
ctTGCAAATAGTTACTGCACGCGCGCCAGCGCCACGGCTTGTCCt > 1:3298121/1‑45 (MQ=25)
|
TGCAATTTTACGAGGAGGATTCAGAAAAAAGCTGATTAGCCAGAGGGAAGCTCACGCCCCCCTCTTGTAAATAGCTACTGTACTCGCGCCAGCGCCACGGCTTGTCCTAACTGCCAGACCGCCATTGCGT > minE/1817582‑1817711
|
| 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
