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 |
1,633,561 |
T→C |
60.5% |
G521G (GGT→GGC) |
narQ → |
sensory histidine kinase in two‑component regulatory system with NarP (NarL) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,633,561 | 0 | T | C | 60.5%
| 21.8
/ 29.1
| 48 | G521G (GGT→GGC) | narQ | sensory histidine kinase in two‑component regulatory system with NarP (NarL) |
| Reads supporting (aligned to +/- strand): ref base T (5/14); new base C (23/6); total (28/20) |
| Fisher's exact test for biased strand distribution p-value = 3.82e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACACGGTTTATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAATATCATGCGCGAACGCGCGGAACGGCTAGGTGGGACGCTGACTTTTT > minE/1633503‑1633622
|
acacGGTTTATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGt > 1:645201/1‑68 (MQ=255)
acacGGTTTATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGt > 1:3014736/1‑68 (MQ=255)
acacGGTTTATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGt > 1:2768475/1‑68 (MQ=255)
acacGGTTTATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGt > 1:1406361/1‑68 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:1063339/69‑1 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:3069985/69‑1 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:252171/69‑1 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:1837728/69‑1 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:1787130/69‑1 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:1306956/69‑1 (MQ=255)
ttATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAatat < 1:1088279/69‑1 (MQ=255)
tataTCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTg < 1:914314/63‑1 (MQ=255)
tataTCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTg < 1:239041/63‑1 (MQ=255)
tCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAATATCATgc > 1:1239349/1‑69 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:335600/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:159683/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:1173032/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:3016622/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:3034686/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:3095366/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:3244194/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:3006792/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:404004/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:492753/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:767058/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:90068/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:946550/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:994286/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:2165866/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:1621864/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:1808971/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:1857189/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:2985394/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:2253647/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:2347877/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGTCTGAata > 1:246209/1‑53 (MQ=255)
cGGGATTGGCATCGGTGAACCGAAAGAACCCGAAGGCCATTATGGGCTGAat > 1:1904761/1‑52 (MQ=255)
gATTGGTATAGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTg < 1:3358390/46‑1 (MQ=255)
aTCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAATATCATGCGCGAACGCGCGGAACGGCTa < 1:2452269/69‑1 (MQ=255)
aTCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAATATCATGCGCGAACGCGCGGAACGGCTa < 1:2880799/69‑1 (MQ=255)
tCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAATATCATGCGCGAACGCGCGGAACGGCTa < 1:1402288/68‑1 (MQ=255)
aCCCGAAGGTCATTATGGTCTGAATATCATGCGCGAACGCGCGGAACGGCTa < 1:2842367/52‑1 (MQ=255)
ccGAATGCCATTATGGTCTGAATATCATGCGCGAACGCGCGGAAAGATTGGGTGGGACGCTGACttttt < 1:767594/69‑1 (MQ=255)
ccGAAGGCCATTATGGTCTGAATATCATGCGCGAACGCGCGGAAAGATTGGGTGGGACTCTGACttttt < 1:1006933/69‑1 (MQ=255)
ccGAAGGCCATTATGGTCTGAATATCATGCGCGAACGCGCGGAAAGATTGGGTGGGACGCTGACttttt < 1:3187553/69‑1 (MQ=255)
ccGAAGGCCATTATGGTCTGAATATCATGCGCGAACGCGCGGAAAGATTGGGTGGGACGCTGACttttt < 1:210106/69‑1 (MQ=255)
ccGAAGGCCATTATGGTCTGAATATCATGCGCGAACGCGCGGAAAGATTGGGTGGGACGCTGACttttt < 1:702739/69‑1 (MQ=255)
ccGAAGGCCATTATGGTCTGAATATCATGCGCGAACGCGCGGAAAGATTGGGTGGGACGCTGACttttt < 1:1175865/69‑1 (MQ=255)
|
ACACGGTTTATATCCGTGATAACGGGATTGGTATCGGTGAACCGAAAGAACCCGAAGGTCATTATGGTCTGAATATCATGCGCGAACGCGCGGAACGGCTAGGTGGGACGCTGACTTTTT > minE/1633503‑1633622
|
| 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
