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 |
1,377,077 |
C→T |
32.2% |
K414K (AAG→AAA) |
mglA ← |
fused methyl‑galactoside transporter subunitsl and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,377,077 | 0 | C | T | 32.2%
| 57.7
/ 32.7
| 68 | K414K (AAG→AAA) | mglA | fused methyl‑galactoside transporter subunitsl and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (11/35); new base T (18/4); total (29/39) |
| Fisher's exact test for biased strand distribution p-value = 1.22e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.07e-01 |
CCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCG > minE/1377012‑1377144
|
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:979615/69‑1 (MQ=255)
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:2103738/69‑1 (MQ=255)
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:463787/69‑1 (MQ=255)
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:191805/69‑1 (MQ=255)
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:2297753/69‑1 (MQ=255)
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:232550/69‑1 (MQ=255)
ccGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:2531446/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:1627209/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:3265945/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:3062594/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:1909583/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:3048495/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:2830221/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:1986890/69‑1 (MQ=255)
gcgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:457614/69‑1 (MQ=255)
cgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:2193690/68‑1 (MQ=255)
cgTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTg > 1:569497/1‑69 (MQ=255)
gTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCttt < 1:2266020/63‑1 (MQ=255)
gTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:997064/67‑1 (MQ=255)
tCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAt < 1:2740763/69‑1 (MQ=255)
tCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAt < 1:2692987/69‑1 (MQ=255)
tCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAt < 1:994029/69‑1 (MQ=255)
tCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAt < 1:1716496/69‑1 (MQ=255)
tCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAt < 1:2491952/69‑1 (MQ=255)
cGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAt < 1:2090635/68‑1 (MQ=255)
ggTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCtttt > 1:659290/1‑61 (MQ=255)
ggTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAtt > 1:456719/1‑68 (MQ=255)
ggTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAtt > 1:2202529/1‑68 (MQ=255)
ggTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAtt > 1:2223942/1‑68 (MQ=255)
ggTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAtt > 1:96956/1‑68 (MQ=255)
ggTTCATCGAGCATTAATATTTATGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGAtt > 1:3377670/1‑68 (MQ=255)
tCATCGAGCATTAATATTTCTGGTTGCGTTAACAGCCAGCGACCAATAATCACTTTTTGCTGATTacca < 1:1816455/69‑1 (MQ=39)
tCATCGAGCATTAATATTTCTGGTTGCGTTAACAGCCAGCGACCAATAATCACTTTTTGCTGATTacca < 1:1073221/69‑1 (MQ=39)
tCATCGAGCATTAATATTTCTGGTTGCGTTAACAGCCAGCGACCAATAATCACTTTTTGCTGATTacca < 1:751084/69‑1 (MQ=39)
cATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:780338/60‑1 (MQ=255)
aTTAATATTTCTGGTTGCGTTCACAGCCAGCGACCAATAATCACTTTTTGCTGATTacca < 1:7612/60‑1 (MQ=37)
atatTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCt < 1:540387/48‑1 (MQ=255)
tttCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCaa < 1:3068344/69‑1 (MQ=255)
tttCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCaa < 1:2181225/69‑1 (MQ=255)
ggTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCaa < 1:2446003/64‑1 (MQ=255)
gCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTcc < 1:558535/60‑1 (MQ=255)
gCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTcc < 1:939854/60‑1 (MQ=255)
gCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTcc < 1:2746577/60‑1 (MQ=255)
gCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTcc < 1:1360392/60‑1 (MQ=255)
gCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTcc < 1:137077/60‑1 (MQ=255)
gCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTcc < 1:1936562/60‑1 (MQ=255)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGga > 1:1879010/1‑38 (MQ=255)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:2827723/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:898844/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:882816/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:822365/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:1506733/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:151383/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:1653042/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:1733686/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:1759104/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:207090/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:2082690/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:2330090/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:2513362/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:3253683/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:3174598/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:271721/1‑68 (MQ=38)
cAGCGACCAATAATCACTTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGCCCCggt > 1:3046076/1‑68 (MQ=38)
atCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGc > 1:2640530/1‑69 (MQ=255)
atCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGc > 1:718668/1‑69 (MQ=255)
atCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGc > 1:2971597/1‑69 (MQ=255)
atCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGc > 1:1359244/1‑69 (MQ=255)
cTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCg < 1:2325159/68‑1 (MQ=255)
|
CCGCGCGTCGGTTCATCGAGCATTAATATTTCTGGTTGCGTTAGTAGCCAGCGACCAATAATCACCTTTTGCTGATTACCACCGGAGAGCGAACCAATTTGCGTCCGATGACCCGGCGTTTTTACCCGCATCG > minE/1377012‑1377144
|
| 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
