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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,879,768 |
A→G |
100% |
R86R (CGT→CGC) |
ytfE ← |
predicted regulator of cell morphogenesis and cell wall metabolism |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,879,768 | 0 | A | G | 78.1%
| 104.8
/ 24.3
| 56 | R86R (CGT→CGC) | ytfE | predicted regulator of cell morphogenesis and cell wall metabolism |
| Reads supporting (aligned to +/- strand): ref base A (12/0); new base G (43/0); total (56/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGGCGC > minE/2879705‑2879820
|
gTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGCCGa > 1:145192/1‑67 (MQ=255)
gTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGACGa > 1:76874/1‑67 (MQ=255)
gTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGACGa > 1:172776/1‑67 (MQ=255)
gTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGACGa > 1:781424/1‑67 (MQ=255)
gTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGACGa > 1:1635513/1‑67 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATa > 1:44865/1‑50 (MQ=19)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:244659/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1889407/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1959911/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1986797/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:202219/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:2039297/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:2148252/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:730004/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:2251580/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1820744/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:245453/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:312702/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:394086/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:436891/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:490217/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:572145/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:631092/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:698223/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:712033/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:725782/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1886634/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:188910/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1812674/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:961212/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1728656/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1320238/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1727953/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1630042/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:162659/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1403626/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:148234/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:931288/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1502084/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1564976/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1028106/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1584537/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:843082/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:159038/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:2273134/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:2130481/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGCAGCTGCTCGCGATGGCGATCGTGATAGCGCACAATAATGTgg > 1:179644/1‑66 (MQ=255)
gTCGCTTGCAGGATCAGCTCCGGAAGCTGCTCGCTATGGCGATCGTGATAGCGCACAATAATGTgg > 1:1476116/1‑66 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:961803/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:2162449/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:1742928/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:1702255/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:1587692/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:1502082/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:1212517/1‑67 (MQ=255)
aGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGgcgc > 1:1146448/1‑67 (MQ=255)
|
GTCGGCGTGAACGCGCTCGACTTTAGTCGCTTGCAGAATCAGCTCCGGCAGTTGCTCGCGGTGACGATCGTGGTAGCGCACGATGATATGGTCGATGATTTCTGCCAGCGGGGCGC > minE/2879705‑2879820
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
