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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
835,879 |
T→C |
26.4% |
G199G (GGT→GGC) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 835,879 | 0 | T | C | 26.4%
| 80.0
/ 32.6
| 53 | G199G (GGT→GGC) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base T (21/18); new base C (7/7); total (28/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
TCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTA > minE/835809‑835946
|
tCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGt > 1:2237282/1‑71 (MQ=255)
tCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGt > 1:740119/1‑71 (MQ=255)
tgatgTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGGGGCGACCTGCCCAAGCGgcgc < 1:2500398/70‑1 (MQ=255)
atgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGAt < 1:2439608/71‑1 (MQ=255)
atgTACCTGCCGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTAt > 1:2411484/1‑71 (MQ=255)
tgTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGAtt < 1:2838530/71‑1 (MQ=255)
ccGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACg > 1:3538935/1‑71 (MQ=255)
ccGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACg < 1:1166262/71‑1 (MQ=255)
ccGCGCCTGTGCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACg > 1:1358102/1‑71 (MQ=255)
gcCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTg > 1:2514634/1‑69 (MQ=255)
gtgCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTgaag > 1:1263113/1‑68 (MQ=255)
tgCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTgaagaa < 1:2287669/69‑1 (MQ=255)
tgCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTgaag > 1:2721897/1‑67 (MQ=255)
tgCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGaagaag < 1:3641584/70‑1 (MQ=255)
tgCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACGCgaagaa < 1:137544/69‑1 (MQ=255)
tgCGAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACGCgaagaa < 1:1615586/69‑1 (MQ=255)
gAACACTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACgcg < 1:999948/61‑3 (MQ=255)
aaCACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATgg > 1:3889425/1‑70 (MQ=255)
aaCACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATgg > 1:2532054/1‑70 (MQ=255)
aaCACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATgg > 1:1490961/1‑70 (MQ=255)
acacTGCCTCAATCCCAGC‑TGCGTGGCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCa < 1:1259087/71‑1 (MQ=255)
cacTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCAt > 1:3423891/1‑71 (MQ=255)
cacTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCAt > 1:3385341/1‑71 (MQ=255)
tGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGt > 1:499022/1‑71 (MQ=255)
ccTGAA‑CCCGGCATGTGTGGCGAGCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTc < 1:3077938/70‑1 (MQ=255)
ccTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTAc < 1:539961/46‑1 (MQ=255)
cTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCt < 1:3603997/71‑1 (MQ=255)
aa‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGa < 1:1373010/70‑1 (MQ=255)
cccGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCg < 1:982906/71‑1 (MQ=255)
cGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGAc > 1:3930504/1‑71 (MQ=255)
gCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTc > 1:3153570/1‑60 (MQ=255)
cATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAg > 1:1687624/1‑71 (MQ=255)
tgtgtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTgaagaa < 1:913346/45‑1 (MQ=255)
tgtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAgaga > 1:1414510/1‑67 (MQ=255)
tgtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGAt < 1:3621278/70‑1 (MQ=255)
cgtgGCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATa < 1:2255555/70‑1 (MQ=255)
gtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATc > 1:804926/1‑60 (MQ=255)
tgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAagaaga < 1:562337/43‑1 (MQ=255)
tgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaaa < 1:1143689/71‑1 (MQ=255)
tgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaaa < 1:3425337/71‑1 (MQ=255)
ggCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAAt > 1:1969010/1‑71 (MQ=255)
ggCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAAt > 1:820397/1‑71 (MQ=255)
gCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATg > 1:2882119/1‑71 (MQ=255)
cGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGc < 1:3429905/71‑1 (MQ=255)
aCCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCg > 1:1984304/1‑71 (MQ=255)
aCCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCg > 1:728049/1‑71 (MQ=255)
ccTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGt < 1:529350/71‑1 (MQ=255)
gCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGa > 1:3035260/1‑48 (MQ=255)
gCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGAt > 1:951557/1‑49 (MQ=255)
cccGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGcc > 1:2063342/1‑65 (MQ=255)
ccGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaaa > 1:354336/1‑60 (MQ=255)
caaGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGtggctgg < 1:3365225/69‑1 (MQ=255)
caaGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGtggctg > 1:1106065/3‑70 (MQ=255)
caaGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGtggctg > 1:780153/3‑70 (MQ=255)
cGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATc < 1:2830272/38‑1 (MQ=255)
gcggcgCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGt < 1:2485156/71‑1 (MQ=255)
gcggcgCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGt < 1:423219/71‑1 (MQ=255)
cGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGt < 1:3323047/70‑1 (MQ=255)
tGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTa < 1:2532702/68‑1 (MQ=255)
tGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTa < 1:1792878/68‑1 (MQ=255)
|
TCATGATGTATTTGCCGCGCCTGTGCGAACACTGCCTGAA‑CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTA > minE/835809‑835946
|
| 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
