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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
991,969 |
T→G |
L144F (TTA→TTC) |
ssuA ← |
aliphatic sulfonate ABC transporter substrate‑binding protein SsuA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 991,969 | 0 | T | G | 100.0%
| 37.9
/ NA
| 13 | L144F (TTA→TTC) | ssuA | aliphatic sulfonate ABC transporter substrate‑binding protein SsuA |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (5/8); total (5/8) |
AACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGT > NZ_CP009273/991886‑992048
|
aaCGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAgg < 1:282682/90‑1 (MQ=255)
aaCGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAgg < 2:570973/90‑1 (MQ=255)
cAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAAc > 2:188565/1‑90 (MQ=255)
ttGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTtgtg < 1:144144/90‑1 (MQ=255)
ttGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTtgtg < 2:645228/90‑1 (MQ=255)
tGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGATCTGGAACCTTTCTGAAAGGCAACTTTGTGa < 2:11223/90‑1 (MQ=255)
gTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGa < 1:138835/90‑1 (MQ=255)
aaGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTAc < 1:352411/90‑1 (MQ=255)
ccGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTtgtg > 1:466414/1‑68 (MQ=255)
ccGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTtgtg < 2:466414/68‑1 (MQ=255)
ggCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGtttt > 1:504420/1‑90 (MQ=255)
ggCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGtttt > 2:309415/1‑90 (MQ=255)
gTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGt > 1:515654/1‑90 (MQ=255)
|
AACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGT > NZ_CP009273/991886‑992048
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGCCAC > NZ_CP009273/991886‑992058
|
AACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAAC < SRR3722088.285406/100‑1 (MQ=60)
TTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGA < SRR3722088.145613/100‑1 (MQ=60)
GTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGG < SRR3722088.140259/100‑1 (MQ=60)
AAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGActgtctcttata > SRR3722088.471883/1‑88 (MQ=60)
ACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTT > SRR3722088.510483/1‑100 (MQ=60)
AAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATC < SRR3722088.356138/100‑1 (MQ=60)
GCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGT > SRR3722088.521876/1‑100 (MQ=60)
GTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCtgtctcttatacacatctccgagcccacgagac > SRR3722088.471639/1‑67 (MQ=60)
|
AACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGCCAC > NZ_CP009273/991886‑992058
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
