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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,014,482 |
A→G |
20.0% |
D529D (GAT→GAC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,482 | 0 | A | G | 20.0%
| 119.3
/ 24.3
| 60 | D529D (GAT→GAC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (29/19); new base G (7/5); total (36/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01 |
CTGTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCC > minE/1014418‑1014544
|
ctGTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcatc > 1:5478054/1‑70 (MQ=255)
ctGTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatc < 1:5480882/67‑1 (MQ=255)
tGTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTat < 1:200366/65‑1 (MQ=255)
tGTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTat < 1:641805/65‑1 (MQ=255)
gTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcat > 1:3974054/1‑67 (MQ=255)
gTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcat > 1:1669720/1‑67 (MQ=255)
tttATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAATAAGTCATTTCCTTTATCATCcac > 1:4075677/1‑70 (MQ=255)
ttATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCcac < 1:4162374/69‑1 (MQ=255)
ttATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCcac > 1:1964758/1‑69 (MQ=255)
tATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCAGAAg > 1:651327/1‑71 (MQ=255)
tATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAg > 1:3445596/1‑71 (MQ=255)
tATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAg > 1:5554675/1‑71 (MQ=255)
aTTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAg > 1:1624172/1‑70 (MQ=255)
tCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTat < 1:4830794/57‑1 (MQ=255)
tCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTat < 1:2043783/57‑1 (MQ=255)
acaGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATaa > 1:1598061/1‑68 (MQ=255)
acaGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATaa > 1:4695406/1‑68 (MQ=255)
acaGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATaa > 1:5647785/1‑68 (MQ=255)
cGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCgg < 1:1554401/71‑1 (MQ=255)
tGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCcac < 1:4179032/52‑1 (MQ=255)
gCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcat > 1:236799/1‑47 (MQ=255)
aTTGTGTGAGTTGTATCTGGTGGAAGATGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCt > 1:3113571/1‑71 (MQ=255)
ttGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAgg > 1:1743950/1‑52 (MQ=255)
ttGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:1742119/55‑1 (MQ=255)
ttGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATc < 1:1179722/69‑1 (MQ=255)
ttGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATc < 1:4372053/69‑1 (MQ=255)
tgtgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAAt > 1:1728731/1‑67 (MQ=255)
tgtgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAAt > 1:1273370/1‑67 (MQ=255)
tgtgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCtt > 1:5460216/1‑70 (MQ=255)
tgtgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTc > 1:3988852/1‑71 (MQ=255)
tgtgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTc > 1:4682293/1‑71 (MQ=255)
gtgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTc > 1:3169026/1‑70 (MQ=255)
tgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:3197063/52‑1 (MQ=255)
tgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:5010572/52‑1 (MQ=255)
tgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:4757560/52‑1 (MQ=255)
tgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:3759953/52‑1 (MQ=255)
tgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:1142094/52‑1 (MQ=255)
tgtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTcc > 1:5068504/1‑70 (MQ=255)
gtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcat > 1:1972261/1‑40 (MQ=255)
gtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcat > 1:3816463/1‑40 (MQ=255)
gtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTatcat > 1:3516100/1‑40 (MQ=255)
gtgAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCAc > 1:4427468/1‑71 (MQ=255)
gAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:1465795/49‑1 (MQ=255)
gAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:1792050/49‑1 (MQ=255)
aGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATa < 1:813566/48‑1 (MQ=255)
tGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAAt > 1:4483828/1‑58 (MQ=255)
tGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAAt > 1:2839048/1‑71 (MQ=255)
gTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAAt > 1:565999/1‑70 (MQ=255)
aTCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAAtttt > 1:535536/1‑71 (MQ=255)
tttgctgGAAGAAGTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATc > 1:5242002/3‑55 (MQ=25)
ttgctgGAAGAAGTCGTTACCTTTGTCATCGACCAGGATAAACGc > 1:3080222/2‑45 (MQ=19)
ttgctgGAAGAAGTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTc > 1:443686/2‑57 (MQ=25)
ttgctgGAAGAAGTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTc > 1:3661546/2‑57 (MQ=25)
ctgGAAGAAGTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAg < 1:3389495/70‑1 (MQ=255)
gaagaaGTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGa > 1:4708865/1‑68 (MQ=255)
gaagaaGTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGAtag > 1:4840571/1‑69 (MQ=255)
gaagaaGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATg > 1:1281765/1‑70 (MQ=255)
gaagaaGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATg < 1:3396548/70‑1 (MQ=255)
caagaagTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGAtag > 1:4840576/2‑69 (MQ=255)
aagTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTc > 1:3585077/1‑71 (MQ=255)
agTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTc < 1:1851522/70‑1 (MQ=255)
tCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCAt > 1:1554285/1‑71 (MQ=255)
cATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCAtt > 1:3199116/1‑71 (MQ=255)
aTTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAAtt < 1:3480619/52‑1 (MQ=255)
aTTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGAt > 1:5655099/1‑60 (MQ=255)
tttCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTc < 1:1187718/41‑1 (MQ=255)
tttCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTc < 1:3929580/41‑1 (MQ=255)
tttCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTcc > 1:489388/1‑71 (MQ=255)
ttCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTc < 1:4017569/40‑1 (MQ=255)
taccTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTc < 1:384221/51‑1 (MQ=25)
cTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTcga < 1:4102925/45‑3 (MQ=21)
tttGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCAt < 1:5383765/63‑1 (MQ=255)
|
CTGTTTATTTCACACAGCGGGTGCATTGTGTGAGTTGTATCTGCTGGAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCC > minE/1014418‑1014544
|
| 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
