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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
753,287 |
G→A |
S48N (AGC→AAC) |
sdhB → |
succinate dehydrogenase iron‑sulfur subunit SdhB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 753,287 | 0 | G | A | 100.0%
| 112.5
/ NA
| 38 | S48N (AGC→AAC) | sdhB | succinate dehydrogenase iron‑sulfur subunit SdhB |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (15/23); total (15/23) |
ATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCT > NZ_CP009273/753202‑753367
|
aTGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGt > 2:957851/1‑91 (MQ=255)
aGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGtt > 1:2800/1‑91 (MQ=255)
tACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTccgcc < 2:2800/91‑1 (MQ=255)
cccTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTc > 1:139689/1‑91 (MQ=255)
cccTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTc > 1:22148/1‑91 (MQ=255)
cTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCt < 1:95303/91‑1 (MQ=255)
cTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCt < 2:42079/91‑1 (MQ=255)
ggAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGc < 2:547239/91‑1 (MQ=255)
gCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTg < 2:547287/91‑1 (MQ=255)
ggATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGaa > 2:1072609/1‑91 (MQ=255)
ggATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGaa > 1:1006592/1‑91 (MQ=255)
gAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGgtg < 1:558033/91‑1 (MQ=255)
tCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGc < 1:498822/91‑1 (MQ=255)
ccccgACATGATGCTGCTGGATGCGCTTCTCCAGCTAAAAGAAAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGc < 2:231676/88‑1 (MQ=255)
cgcgACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCg > 1:930795/1‑91 (MQ=255)
tgatgCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGa < 1:849080/91‑1 (MQ=255)
gatgCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCGGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGAc < 2:618237/91‑1 (MQ=255)
ggATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGATCCGCCGCTCCTGCCGTGAAGGGGTGTGCGGTTCCGACGGTCTGAAc > 1:330549/1‑91 (MQ=255)
tcgcTCATCCAGCTGAAAAAGAAACGTCCCACCCTGTGGTTCCTCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGGCGAGCTGAACATGa < 2:20111/90‑1 (MQ=255)
gcgcTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGa < 2:1006592/91‑1 (MQ=255)
cTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACg > 2:495957/1‑91 (MQ=255)
cTTACCCAGCTAAAAGAGAAAGATCCCACCCTCTGTTTCCGCCCCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACg < 2:510719/91‑1 (MQ=255)
aTCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCa < 1:689132/91‑1 (MQ=255)
aGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGaa < 1:899955/91‑1 (MQ=255)
aGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGaa < 2:674519/91‑1 (MQ=255)
aGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGaa < 1:381784/91‑1 (MQ=255)
aGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGaa < 1:368998/91‑1 (MQ=255)
aGCTAAAAGAGAAAGACCCCACCCTGGCGTCCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGaa < 2:508343/91‑1 (MQ=255)
gCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAAt > 1:1034528/1‑91 (MQ=255)
gCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAAt > 2:433217/1‑91 (MQ=255)
aaaGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTc < 1:913867/91‑1 (MQ=255)
aaaGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTc < 1:794606/91‑1 (MQ=255)
aaaGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTc < 2:1034528/91‑1 (MQ=255)
agaAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGc < 2:139689/91‑1 (MQ=255)
gaAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGaa > 1:813800/1‑40 (MQ=255)
gaAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGaa < 2:813800/40‑1 (MQ=255)
gaAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGACGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGcc > 1:128665/1‑91 (MQ=255)
gaAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGcc < 2:22148/91‑1 (MQ=255)
gaAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGcc < 1:1018473/91‑1 (MQ=255)
aaaaGATCCCACCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGcc < 2:944901/90‑1 (MQ=255)
aaaGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGcc > 2:215476/1‑90 (MQ=255)
aaaGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGcc < 1:215476/90‑1 (MQ=255)
aaaGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCt > 1:595594/1‑91 (MQ=255)
|
ATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCT > NZ_CP009273/753202‑753367
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATTT > NZ_CP009273/753188‑753382
|
ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAAC > SRR3722125.876513/1‑101 (MQ=60)
CCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTT > SRR3722125.2867/1‑101 (MQ=60)
CAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTC > SRR3722125.142345/1‑101 (MQ=60)
CAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTC > SRR3722125.22541/1‑101 (MQ=60)
CCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAA > SRR3722125.1029103/1‑101 (MQ=60)
CTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGG < SRR3722125.97099/101‑1 (MQ=60)
GGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCG > SRR3722125.951466/1‑101 (MQ=60)
GAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTC < SRR3722125.569976/101‑1 (MQ=60)
TCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACG < SRR3722125.509373/101‑1 (MQ=60)
TGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAAC < SRR3722125.867763/101‑1 (MQ=60)
TGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGATCCGCCGCTCCTGCCGTGAAGGGGTGTGCGGTTCCGACGGTCTGAAC > SRR3722125.337379/1‑101 (MQ=60)
CGCTTATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAAT > SRR3722125.1057745/1‑101 (MQ=60)
ATCCAGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCT < SRR3722125.703992/101‑1 (MQ=60)
AGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGACGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCC > SRR3722125.131090/1‑101 (MQ=60)
AGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGctgtctcttatacacatctccgagcccacgagactaggcat > SRR3722125.831616/1‑60 (MQ=60)
AGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCC < SRR3722125.376730/101‑1 (MQ=60)
AGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCC < SRR3722125.389792/101‑1 (MQ=60)
AGCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCC < SRR3722125.919873/101‑1 (MQ=60)
GCTAAAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCT > SRR3722125.608405/1‑101 (MQ=60)
AAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTAT < SRR3722125.811952/101‑1 (MQ=60)
AAAGAGAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTAT < SRR3722125.934108/101‑1 (MQ=60)
GAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCC < SRR3722125.219725/101‑1 (MQ=60)
GAAAGATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCC < SRR3722125.1041288/101‑1 (MQ=60)
ATCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATT > SRR3722125.426957/1‑101 (MQ=60)
TCCCAACCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGAAAGAATGGTCTGGCCTGTATTACCCCGATTT > SRR3722125.670245/1‑101 (MQ=60)
|
ATGATGCTCCGCGTATGCAGGATTACACCCTGGAAGCGGATGAAGGTCGCGACATGATGCTGCTGGATGCGCTTATCCAGCTAAAAGAGAAAGATCCCAGCCTGTCGTTCCGCCGCTCCTGCCGTGAAGGTGTGTGCGGTTCCGACGGTCTGAACATGAACGGCAAGAATGGTCTGGCCTGTATTACCCCGATTT > NZ_CP009273/753188‑753382
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
