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 |
815,460 |
G→C |
68.8% |
L85L (CTC→CTG) |
lolB ← |
chaperone for lipoproteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 815,460 | 0 | G | C | 68.8%
| 52.1
/ 30.8
| 48 | L85L (CTC→CTG) | lolB | chaperone for lipoproteins |
| Reads supporting (aligned to +/- strand): ref base G (13/2); new base C (13/20); total (26/22) |
| Fisher's exact test for biased strand distribution p-value = 4.09e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.06e-01 |
GCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTT > minE/815405‑815524
|
gCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGt > 1:1265410/1‑69 (MQ=255)
gCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGt > 1:1016237/1‑69 (MQ=255)
gCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGt > 1:1803770/1‑69 (MQ=255)
ttACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGa < 1:2289519/69‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCGGCAGACGGt < 1:1715640/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACgtt < 1:1416633/59‑3 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:3390457/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:338517/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:3318612/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:889591/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:319090/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:3019269/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:3007592/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2979524/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2831615/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2689561/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2245080/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2176474/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:1700571/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:1739841/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2236271/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:2109841/59‑1 (MQ=255)
cGGTTGAGCATTCAGCTCCAGTCCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:1674755/59‑1 (MQ=255)
cGGTTGAGCATTAAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTCAGCAGCAGACGGt < 1:3270408/59‑1 (MQ=255)
gAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGAt > 1:1812197/1‑60 (MQ=255)
gAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGAt > 1:2941799/1‑60 (MQ=255)
gAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGATAGCGAt > 1:825712/1‑60 (MQ=255)
cAGCTCAAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTtgct > 1:3041605/1‑68 (MQ=255)
ccAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAg > 1:818682/1‑68 (MQ=255)
ccAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAg > 1:2773564/1‑68 (MQ=255)
ccAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAg > 1:692747/1‑68 (MQ=255)
ccAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAg > 1:3420893/1‑68 (MQ=255)
gTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGaaaa < 1:2688819/69‑1 (MQ=255)
ctgcCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCg > 1:1315182/1‑69 (MQ=255)
gggTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACtttt > 1:2112430/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:2347956/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:954651/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:919106/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:2310204/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:456991/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:3391411/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:292410/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:2134872/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:3120113/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:2859625/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:1925989/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgtt > 1:2910288/1‑69 (MQ=255)
tAGTCAGCAGCAGACGGTAGCGATCCTGGCCAGTTTGCTGCCAGAAGAAACGGGCGTACACTTTttgt > 1:1926437/1‑68 (MQ=255)
|
GCACGTTACCCGGTTGAGCATTCAGCTCCAGTTCCGTGCTGCCCAATGGGTTAGTGAGCAGCAGACGGTAGCGATCCTGGCCGGTTTGCTGCCAGAAAAAGCGGGCGTACACTTTTTGTT > minE/815405‑815524
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
