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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,569,965 |
T→C |
62.8% |
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 | 62.8%
| 37.2
/ 42.7
| 43 | Q191Q (CAA→CAG) | yddW | predicted liprotein |
| Reads supporting (aligned to +/- strand): ref base T (5/11); new base C (10/17); total (15/28) |
| Fisher's exact test for biased strand distribution p-value = 7.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
CTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGT > W3110S.gb/1569899‑1570021
|
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTg > 1:2023922/1‑69 (MQ=255)
cTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTg > 1:1980638/1‑69 (MQ=255)
gAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGTTCGCCAGACGTTCTGATCCAGTCGCGGTGCTGca < 1:3216822/69‑1 (MQ=255)
gAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:209183/69‑1 (MQ=255)
cTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATa < 1:1615137/69‑1 (MQ=255)
cTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATa < 1:3541530/69‑1 (MQ=255)
ggATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:179126/60‑1 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCg > 1:3410586/1‑69 (MQ=255)
tGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCg > 1:3540939/1‑69 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGcc > 1:1131032/1‑69 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGcc > 1:1196600/1‑69 (MQ=255)
cccGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGcc > 1:2964521/1‑69 (MQ=255)
tCGAGGACAAAGCGATCGCCATACGTTCTGATCCAGTCGCGGTGTTGca < 1:2475415/49‑1 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCTGTGTTGca < 1:2715947/49‑1 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca < 1:3492190/49‑1 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGca > 1:3629121/1‑49 (MQ=255)
tCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTCTTGca < 1:628301/49‑1 (MQ=255)
tCGAGGACAAAGCGATCGCCAGAAGTTCTGATCCAGTCGCGGTGTTGc > 1:1775710/1‑48 (MQ=255)
gAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttg > 1:2230124/1‑66 (MQ=255)
gAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttg > 1:2408469/1‑66 (MQ=255)
cAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGgttgt > 1:3204391/1‑62 (MQ=255)
cAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTgaga > 1:1522930/1‑67 (MQ=255)
cAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGAACATAGCCGCTCGCCGGTTGTTgaga > 1:2248900/1‑67 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGcaca < 1:3367525/40‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGcaca < 1:703791/40‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGcaca < 1:2875301/40‑1 (MQ=255)
gCGATCGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACag > 1:2762955/1‑66 (MQ=255)
aTCGCCAGACGTTCTGATCCAGTCGCGGTTCTGCACATa < 1:2957527/39‑1 (MQ=37)
tCGCCAGACGTTCTGATCCAGTCGCGGTGCTGcaca < 1:2073153/36‑1 (MQ=255)
cGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTAt < 1:3429184/69‑1 (MQ=255)
cGCCAGACGTTCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTAt < 1:702557/69‑1 (MQ=255)
aGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAg < 1:2517749/69‑1 (MQ=255)
aGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAg < 1:1952752/69‑1 (MQ=255)
ttCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGAGCTATTCa < 1:2567538/63‑1 (MQ=255)
tCTGATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCt < 1:2677822/69‑1 (MQ=255)
gATCCAGTCGCGGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:3329525/68‑1 (MQ=255)
ccAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:1861026/69‑1 (MQ=255)
ccAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGt < 1:1470154/69‑1 (MQ=255)
cgcgGTGCTGCACATAGACGCTCGCCGGTTGTTga < 1:1031017/35‑1 (MQ=255)
gcgGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTcc < 1:1744496/55‑1 (MQ=255)
gcgGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:34360/59‑1 (MQ=255)
gcgGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:1505892/59‑1 (MQ=255)
gcgGTGCTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGa < 1:1498203/59‑1 (MQ=255)
|
CTGAACCTCAGGGATGCCCGGGTCGAGGACAAAGCGATCGCCAGACGTTCTGATCCAGTCGCGGTGTTGCACATAGACGCTCGCCGGTTGTTGAGACAGAGTGCTATTCAGTTCCCTGATAGT > W3110S.gb/1569899‑1570021
|
| 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
