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 |
2,787,739 |
T→C |
33.9% |
P231P (CCA→CCG) |
lysC ← |
aspartokinase III |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,787,739 | 0 | T | C | 33.9%
| 38.5
/ 28.7
| 56 | P231P (CCA→CCG) | lysC | aspartokinase III |
| Reads supporting (aligned to +/- strand): ref base T (9/28); new base C (13/6); total (22/34) |
| Fisher's exact test for biased strand distribution p-value = 3.19e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01 |
AGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTAAA > minE/2787673‑2787799
|
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:2424083/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:1735098/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:1195522/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:1115992/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:2849807/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:3384765/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:3050048/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:125831/69‑1 (MQ=255)
aGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTgg < 1:3206092/69‑1 (MQ=255)
gTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGAGTTTTGCTGCGGAAACTACGCGTgg < 1:1302831/68‑1 (MQ=255)
tctGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCggtgg > 1:1976767/1‑67 (MQ=255)
tctGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGAGTGGATCggtgg > 1:1390898/1‑67 (MQ=255)
ccGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:3123923/67‑1 (MQ=255)
ccGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:3261413/67‑1 (MQ=255)
ccGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:705533/67‑1 (MQ=255)
ccGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:632596/67‑1 (MQ=255)
ccGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:1171939/67‑1 (MQ=255)
cGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:714317/66‑1 (MQ=255)
gCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCgg < 1:2202198/68‑1 (MQ=255)
gCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCgg < 1:2433420/68‑1 (MQ=255)
cgcgATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGt > 1:862496/1‑68 (MQ=255)
cgcgATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGt > 1:3244879/1‑68 (MQ=255)
cgcgATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGt > 1:2256455/1‑68 (MQ=255)
cgcgATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGt > 1:1499954/1‑68 (MQ=255)
cgcgATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTc > 1:737343/1‑69 (MQ=255)
cgcgATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTc > 1:709748/1‑69 (MQ=255)
cgagATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTc > 1:2140333/4‑69 (MQ=255)
gATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTa < 1:2433927/51‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:125481/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:709702/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:500483/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:2827756/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:1180705/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:2497400/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:1882288/69‑1 (MQ=255)
tttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:2025439/69‑1 (MQ=255)
ttGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACga < 1:2990760/68‑1 (MQ=255)
ttGCTGCGGAAACCACGCGCTGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCa < 1:1302049/55‑1 (MQ=255)
ttGCTGCGGAAACCACGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCa < 1:1232681/55‑1 (MQ=255)
ttGCTGCGGAAACCACGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCa < 1:3297702/55‑1 (MQ=255)
ttGCTGCGGAAACCACGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCa < 1:657812/55‑1 (MQ=255)
ttGCTGCGGAAACCACGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCa < 1:876569/55‑1 (MQ=255)
ttGCTGCGGAAACCACGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCa < 1:2781600/55‑1 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCTAGATATCAACACGAGATGCGTGTaaa > 1:1673181/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATg > 1:3144988/4‑61 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:890548/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:955178/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:3404999/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:2862476/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:2488947/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:22266/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:2144845/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:213422/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:1554143/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaaa > 1:1232911/4‑69 (MQ=255)
accaCGCGCGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTaa > 1:1222993/4‑68 (MQ=255)
|
AGTTGCCATCTCTGCCGCTTCGGCAAACGCGATTTCATCAATGCGTTTTGCTGCGGAAACTACGCGTGGATCGGTGGTGTAGATGCCCGGGACGTCGGTCCAGATATCAACACGAGATGCGTGTAAA > minE/2787673‑2787799
|
| 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
