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 |
2,243,916 |
G→A |
42.8% |
G252G (GGC→GGT) |
hemE ← |
uroporphyrinogen decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,243,916 | 0 | G | A | 42.8%
| 16.8
/ 39.7
| 56 | G252G (GGC→GGT) | hemE | uroporphyrinogen decarboxylase |
| Reads supporting (aligned to +/- strand): ref base G (15/17); new base A (20/4); total (35/21) |
| Fisher's exact test for biased strand distribution p-value = 6.25e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.51e-01 |
TCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTAAACCATCAACAA > minE/2243851‑2243983
|
tCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTccgccg > 1:1306961/1‑69 (MQ=255)
gTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCttt > 1:3007127/1‑68 (MQ=255)
gTCGAGGCCCAGCGCATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTa > 1:886902/1‑67 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:3327745/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2488820/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2608584/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2802292/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2805154/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2809101/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:100809/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2906510/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:3271092/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:2838181/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:353163/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:429377/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:649829/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:787252/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:937933/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:988620/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:1500235/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGAct > 1:1765819/1‑68 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTAAGTAAAc > 1:1499339/1‑60 (MQ=255)
aGCGCATCGCAACCGGTTTCTGCCATCGCTTCCAGCCACTATCCACCGCCTTTAGTAAACAGCCTGAct > 1:901439/1‑68 (MQ=255)
cgcATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCgg < 1:965490/69‑1 (MQ=255)
cgcATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCgg < 1:563501/69‑1 (MQ=255)
cgcATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCgg < 1:2108998/69‑1 (MQ=255)
cgcATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCgg < 1:3248299/69‑1 (MQ=255)
cgcATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCgg < 1:3018755/69‑1 (MQ=255)
cGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTAcgc > 1:2576907/1‑69 (MQ=255)
cGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTAcgc > 1:575299/1‑69 (MQ=255)
cGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTAcgc > 1:1858506/1‑69 (MQ=255)
cGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTAcg > 1:2444350/1‑68 (MQ=255)
cGCAACAGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTAcgc > 1:2723/1‑69 (MQ=255)
ggTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGt > 1:144936/1‑51 (MQ=255)
ggTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGt > 1:2068401/1‑51 (MQ=255)
ggTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGACTGGTACGCGGCGAcc < 1:1497121/69‑1 (MQ=255)
ggTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGACTGGTACGCGGCGAcc < 1:2828527/69‑1 (MQ=255)
ggTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGACTGGTACGCGGCGAcc < 1:1221147/69‑1 (MQ=255)
ggTTTCTGCCATCGCTTCCAGCCACTGTCCACCGCCTTTAGTAAACAGCGTGACTGGTACGCGGCGAcc < 1:2249812/69‑1 (MQ=255)
gTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACgcggcg > 1:1851053/1‑65 (MQ=255)
gTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACgcggcg > 1:542826/1‑65 (MQ=255)
gTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACgcggcg > 1:495401/1‑65 (MQ=255)
gTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACgcggcg > 1:1602105/1‑65 (MQ=255)
ttCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACcgtc < 1:1789735/69‑1 (MQ=255)
ccATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCgg < 1:2438057/49‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:3404983/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:1651496/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:575259/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:3239197/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:3021278/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:3018027/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:259611/68‑1 (MQ=255)
aGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:1029735/68‑1 (MQ=255)
gCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:521946/67‑1 (MQ=255)
gCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa > 1:190210/1‑67 (MQ=255)
gCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTa > 1:336924/1‑66 (MQ=255)
tGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTaa < 1:2966338/62‑1 (MQ=255)
cgccgcCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTAAACCATcaacaa < 1:3112077/69‑1 (MQ=255)
|
TCCGTTGTCCAGTCGAGGCCCAGCGCATCGCAACCGGTTTCTGCCATGGCTTCCAGCCACTGTCCGCCGCCTTTGGTAAACAGCGTGACCGGTACGCGGCGACCGTCGTTTTCACGCAGTAAACCATCAACAA > minE/2243851‑2243983
|
| 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
