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 |
512,666 |
C→T |
47.0% |
V357V (GTG→GTA) |
ybhC ← |
predicted pectinesterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 512,666 | 0 | C | T | 47.0%
| 6.6
/ 56.3
| 68 | V357V (GTG→GTA) | ybhC | predicted pectinesterase |
| Reads supporting (aligned to +/- strand): ref base C (23/13); new base T (18/14); total (41/27) |
| Fisher's exact test for biased strand distribution p-value = 6.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
AGATCACCGCATCGGCCCACGGTTTAGCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATC > minE/512599‑512725
|
agaTCACCGCATCGGCCCACGGTTTAGCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATcacc < 1:3267468/68‑1 (MQ=255)
cGGCCCACGGTTTAGCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:1969827/69‑1 (MQ=255)
gCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTgg > 1:3182492/1‑61 (MQ=255)
gCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACa > 1:96018/1‑69 (MQ=255)
gCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACa > 1:1393359/1‑69 (MQ=255)
gCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACa > 1:2509818/1‑69 (MQ=255)
gCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACa > 1:1414426/1‑69 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:2841542/49‑1 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:2524747/49‑1 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:245025/49‑1 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:1489969/49‑1 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:1645030/49‑1 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:1583606/49‑1 (MQ=255)
ttAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTgg < 1:1586017/49‑1 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATGACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:3142215/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCAGTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:404508/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCa > 1:507519/1‑55 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCaa > 1:233733/1‑59 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:98478/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:3423157/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:2512100/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:1401109/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:367888/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:249602/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:2933277/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:2962057/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:1807201/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:628636/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:3078428/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcga > 1:1585818/1‑69 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCagcg > 1:67750/1‑68 (MQ=255)
aaaaCCTTCGTTGATGGCGCTATCACGGATCACTACCAGACCGTTGGTATTGGCATCAACATCCagcga > 1:974012/1‑69 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:2958628/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:1115924/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:1016250/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:2871089/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:1632037/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:3272159/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:354914/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:2487616/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:1403709/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:2263767/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:1504829/69‑1 (MQ=255)
ttCGTTGATGGCGCTATCACCGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:1764993/69‑1 (MQ=255)
tCGTTGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:929118/68‑1 (MQ=255)
tCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCa > 1:3129444/1‑51 (MQ=255)
tCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGccc > 1:1084554/1‑69 (MQ=255)
tCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGccc > 1:1154530/1‑69 (MQ=255)
tCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGc > 1:720843/1‑67 (MQ=255)
ttGATGGCGCTATCACGGATCACTACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGcc < 1:3135126/65‑1 (MQ=255)
ggCGCTATCACGGATCACCACCTGACCGGTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTgcgc < 1:2379445/69‑1 (MQ=255)
aTCACGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACAcc < 1:193246/69‑1 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCagcgag > 1:1664532/1‑46 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt < 1:1789804/55‑1 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt < 1:3022594/55‑1 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt > 1:1305472/1‑55 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt > 1:1501655/1‑55 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt > 1:752569/1‑55 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt < 1:724414/55‑1 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGt > 1:2532312/1‑55 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:2932800/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:2825947/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:2509711/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:3249862/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:2571982/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:3418353/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:3348499/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:1285952/1‑69 (MQ=255)
aCGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATc > 1:3289823/1‑69 (MQ=255)
|
AGATCACCGCATCGGCCCACGGTTTAGCCGTGTTAAAACCTTCGTTGATGGCGCTATCACGGATCACCACCTGACCGTTGGTATTGGCATCAACATCCAGCGAGCGGCCCAGTTGCGCCACACCATC > minE/512599‑512725
|
| 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
