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 |
1,014,788 |
C→G |
21.7% |
T427T (ACG→ACC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,788 | 0 | C | G | 21.7%
| 91.1
/ 20.0
| 48 | T427T (ACG→ACC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base C (22/15); new base G (8/2); total (30/18) |
| Fisher's exact test for biased strand distribution p-value = 2.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.32e-01 |
GATCGACATAAGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGT > minE/1014721‑1014852
|
gATCGACATAAGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGt < 1:2935683/70‑1 (MQ=255)
tCGACATAAGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGttt > 1:116620/1‑70 (MQ=255)
aCATAAGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGc < 1:2207995/71‑1 (MQ=255)
aTAAGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCg > 1:1045288/1‑71 (MQ=255)
aaGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGa > 1:3023545/1‑71 (MQ=255)
atccatccGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGAccc > 1:2789702/1‑70 (MQ=255)
tccgtccgGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGttt < 1:3929613/54‑1 (MQ=255)
cgtcccGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCgtagta < 1:3608595/71‑1 (MQ=255)
ctgcggTGGTTGGGCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCgtag > 1:2669235/3‑65 (MQ=255)
tgcggTGGTTGGGCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCgtag > 1:3835326/2‑64 (MQ=255)
ggcggTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCg < 1:1963437/71‑1 (MQ=255)
cggTGGTTGGGCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCggg > 1:3979551/1‑70 (MQ=255)
ggTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGgat < 1:2927941/71‑1 (MQ=255)
gTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGgatg < 1:1281739/71‑1 (MQ=255)
gggCCAAGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCttt > 1:2622623/1‑71 (MQ=255)
gggCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCtt > 1:82283/1‑70 (MQ=255)
ggCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:3307703/70‑1 (MQ=255)
ggCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:549856/70‑1 (MQ=255)
ccAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTaaa < 1:1415740/55‑1 (MQ=255)
ccAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTaaa < 1:830660/55‑1 (MQ=255)
cAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATg < 1:5629680/71‑1 (MQ=255)
aaGTGAACCTGATGGATAACCGGCAGGTGTTTTCGCCGGACCcgc < 1:1037267/45‑1 (MQ=255)
aaGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTGATg > 1:2967144/1‑70 (MQ=255)
aaGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTGATg > 1:2722137/1‑70 (MQ=255)
aaGAGAACGGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATc < 1:961661/63‑1 (MQ=255)
gtgaACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCgtag < 1:1254013/45‑1 (MQ=255)
gtgaACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCgta > 1:448847/3‑46 (MQ=255)
gagaACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGga > 1:4586304/1‑56 (MQ=255)
gagaACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTAc > 1:47173/1‑71 (MQ=255)
agaACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:770335/63‑1 (MQ=255)
gaACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTGATGTACTg > 1:5638293/1‑71 (MQ=255)
aaCCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTg < 1:4151197/62‑1 (MQ=255)
ggAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGa > 1:86848/1‑59 (MQ=255)
ggAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGa > 1:590103/1‑59 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAg > 1:808093/1‑71 (MQ=255)
aTAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTaa > 1:3987559/1‑37 (MQ=255)
aaCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGgatga > 1:314085/1‑44 (MQ=255)
aaCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCg > 1:5326622/1‑60 (MQ=255)
aaCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCg > 1:3455482/1‑60 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGa > 1:1864890/1‑50 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCa > 1:5414016/1‑70 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCa > 1:3814459/1‑70 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCAc > 1:101591/1‑71 (MQ=255)
ccTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCAcc > 1:4527079/1‑71 (MQ=255)
tCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCtt > 1:549322/1‑43 (MQ=255)
tCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCAcc > 1:2011655/1‑68 (MQ=255)
tCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGt > 1:3026398/1‑70 (MQ=255)
cGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGccc < 1:2412323/60‑1 (MQ=255)
|
GATCGACATAAGAATCCATCCGTCCGGCGGTCGTTGGGCCAAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGT > minE/1014721‑1014852
|
| 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
