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 F1 I192 R1
|
3 |
50.2 |
3125578 |
94.6% |
2956796 |
83.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| MC JC |
NZ_CP009273 |
2,399,465 |
Δ7 bp |
coding (650‑656/939 nt) |
lrhA ← |
transcriptional regulator LrhA |
|
| | | | seq id |
start |
end |
size |
←reads |
reads→ |
gene |
description |
|---|
| * |
* |
÷ |
NZ_CP009273 |
2399465 |
2399471 |
7 |
53 [0] |
[0] 54 |
lrhA |
transcriptional regulator LrhA |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
NZ_CP009273 |
= 2399464 | 0 (0.000) | 53 (1.010) |
29/166 |
0.3 |
100% |
coding (657/939 nt) |
lrhA |
transcriptional regulator LrhA |
| ? | NZ_CP009273 |
2399472 = |
0 (0.000) | coding (649/939 nt) |
lrhA |
transcriptional regulator LrhA |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGA > NZ_CP009273/2399381‑2399561
|
AGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGG < SRR3722070.972489/100‑1 (MQ=60)
TCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAAT < SRR3722070.941806/100‑1 (MQ=60)
TCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAAT < SRR3722070.852838/100‑1 (MQ=60)
TCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAAT < SRR3722070.195422/100‑1 (MQ=60)
TCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAAT < SRR3722070.370615/100‑1 (MQ=60)
GGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATC > SRR3722070.1143810/1‑100 (MQ=60)
TCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722070.989204/100‑1 (MQ=60)
TCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722070.438276/100‑1 (MQ=60)
TCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722070.1370803/100‑1 (MQ=60)
TCTCAACCGGCCTCGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722070.8097/100‑1 (MQ=60)
TCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAG < SRR3722070.8529/100‑1 (MQ=60)
GCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCC < SRR3722070.635773/100‑1 (MQ=60)
GCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCAC < SRR3722070.872763/100‑1 (MQ=60)
GCCGCCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCAC < SRR3722070.556112/100‑1 (MQ=60)
GTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCAT < SRR3722070.422525/100‑1 (MQ=60)
AGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAA > SRR3722070.698790/1‑100 (MQ=60)
GACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAAC > SRR3722070.629628/1‑100 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722070.1499953/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722070.96895/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722070.1281132/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722070.664757/100‑1 (MQ=60)
CCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCC < SRR3722070.622243/100‑1 (MQ=60)
GGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAA > SRR3722070.479141/1‑100 (MQ=60)
CGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAG < SRR3722070.1086243/100‑1 (MQ=60)
AAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGA < SRR3722070.1225826/100‑1 (MQ=60)
|
AGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGA > NZ_CP009273/2399381‑2399561
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
