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 |
|
A1 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,569,965 |
T→C |
100% |
Q191Q (CAA→CAG) |
yddW ← |
predicted liprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,569,965 | 0 | T | C | 81.6%
| 88.4
/ 12.8
| 38 | Q191Q (CAA→CAG) | yddW | predicted liprotein |
| Reads supporting (aligned to +/- strand): ref base T (0/7); new base C (14/17); total (14/24) |
| Fisher's exact test for biased strand distribution p-value = 3.34e-02 |
| 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. |
ACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGA > W3110S.gb/1569903‑1570017
|
aCCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATa < 1:1280574/71‑1 (MQ=255)
aCCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATa < 1:946773/71‑1 (MQ=255)
aCCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATa < 1:357621/71‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:1075915/57‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:975693/57‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:95618/57‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:899500/57‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:1972898/57‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:1695376/57‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCAAGTCGCGGTGTTGca < 1:467048/57‑1 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCTGTGCTGCACATAGACGCTCGCCgg > 1:437025/1‑71 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCgg > 1:1297116/1‑71 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCgg > 1:1525235/1‑71 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCgg > 1:844573/1‑71 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCgg > 1:532977/1‑71 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCgg > 1:1402280/1‑71 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCgg > 1:356917/1‑71 (MQ=255)
ccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgt < 1:738173/71‑1 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttgtt > 1:995902/1‑70 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttgt > 1:861938/1‑69 (MQ=255)
gACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttg > 1:914720/1‑63 (MQ=255)
gACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttg > 1:1459487/1‑63 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:381970/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:1201470/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:1495113/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:1351964/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:1656184/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:1471943/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:49996/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:386759/71‑1 (MQ=255)
aCAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag < 1:34807/71‑1 (MQ=255)
cGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgt < 1:1532213/54‑1 (MQ=255)
ttCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTgag < 1:893737/48‑1 (MQ=255)
ttCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTgag < 1:1034817/48‑1 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa > 1:726433/1‑70 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa > 1:52363/1‑70 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa > 1:299876/1‑70 (MQ=255)
cTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:1478447/70‑1 (MQ=255)
|
ACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGA > W3110S.gb/1569903‑1570017
|
| 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
