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 F21 I0 R1
|
57 |
0.0 |
661283 |
90.4% |
597799 |
68.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
462,141 |
C→A |
100% |
L43M (CTG→ATG) |
sdhD → |
succinate dehydrogenase, membrane subunit, binds cytochrome b556 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 462,141 | 0 | C | A | 88.9%
| 20.4
/ ‑2.0
| 9 | L43M (CTG→ATG) | sdhD | succinate dehydrogenase, membrane subunit, binds cytochrome b556 |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (0/8); total (0/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGCTGACATATGAAGT > minE/462085‑462154
|
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGCTGACATATGAAGt < 1:629468/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:109606/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:121222/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:277511/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:338863/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:55419/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:623334/70‑1 (MQ=255)
tCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:636313/70‑1 (MQ=255)
ccTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGATGACATATGAAGt < 1:270694/66‑1 (MQ=255)
|
TCGTCCTGACGCTCTACATCATTTATATGGTCGGTTTTTTCGCTACCAGTGGCGAGCTGACATATGAAGT > minE/462085‑462154
|
| 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
