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 F2 I198 R1
|
96 |
36.2 |
2313912 |
84.6% |
1957569 |
85.2 |
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 |
46 [0] |
[0] 46 |
lrhA |
transcriptional regulator LrhA |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
NZ_CP009273 |
= 2399464 | 0 (0.000) | 46 (1.300) |
26/168 |
0.2 |
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
CGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGAT > NZ_CP009273/2399378‑2399562
|
CGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCA > SRR3722077.447949/1‑100 (MQ=60)
GGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGA > SRR3722077.34382/1‑100 (MQ=60)
TCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAAT < SRR3722077.648594/100‑1 (MQ=60)
GGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCT < SRR3722077.989318/100‑1 (MQ=60)
CTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGC > SRR3722077.29771/1‑100 (MQ=60)
TCTCACCCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722077.292286/100‑1 (MQ=60)
TCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722077.376871/100‑1 (MQ=60)
TCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTA < SRR3722077.466173/100‑1 (MQ=60)
TCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAG < SRR3722077.470023/100‑1 (MQ=60)
ACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGT < SRR3722077.757189/100‑1 (MQ=60)
GCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCAC < SRR3722077.304286/100‑1 (MQ=60)
GCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCAC < SRR3722077.615383/100‑1 (MQ=60)
CGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCG > SRR3722077.1022682/1‑100 (MQ=60)
GACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAAC < SRR3722077.332612/100‑1 (MQ=60)
gagatgtgtataagagacagGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCT < SRR3722077.136686/80‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.1040081/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.218362/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.962647/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.915130/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.8215/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.753720/100‑1 (MQ=60)
CACTGCCGCACGAACGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGAT < SRR3722077.130980/100‑1 (MQ=60)
CGGCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACA > SRR3722077.610442/1‑100 (MQ=60)
GCCGGAAGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAG < SRR3722077.150620/100‑1 (MQ=60)
AGCGTCGAG‑‑‑‑‑‑‑AAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGAT < SRR3722077.1094099/100‑1 (MQ=60)
|
CGCAGGTCCGGGCTCATCATCTCAACCGGCCTTGCCGTCACGCCAAGACCGGCTTTCACTGCCGCACGAACGGCCGGAAGCGTCGAGGCGACATAAGCCAGTCGCCATGGAATATCTGCTTTATTAAGCGTCGCCAGCACCATATCGCGAAACGGGCTAGGATCATCCAGCAATACAAGAGGGAT > NZ_CP009273/2399378‑2399562
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
