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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
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%
| 65.7
/ NA
| 20 | 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 (7/13); total (7/13) |
TGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGC > NZ_CP009273/991883‑992055
|
tGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGaaa < 1:60660/90‑1 (MQ=255)
ggAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGaaaa < 2:464449/90‑1 (MQ=255)
gcggcgcggGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAgg < 1:503952/87‑1 (MQ=255)
gcggcgcggGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAgg > 2:503952/1‑87 (MQ=255)
cggcgcggGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTtgt > 2:518745/1‑90 (MQ=255)
ggCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTc > 1:40042/1‑90 (MQ=255)
ttGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTtgtg < 1:766820/90‑1 (MQ=255)
ttGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTtgtg < 2:1038297/90‑1 (MQ=255)
tGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGa < 2:40042/90‑1 (MQ=255)
tatCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCa < 2:754370/77‑1 (MQ=255)
tatCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCa > 1:754370/1‑77 (MQ=255)
tatCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCtt > 1:883360/1‑90 (MQ=255)
cGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTaa > 2:320046/1‑90 (MQ=255)
gTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGa < 2:197033/90‑1 (MQ=255)
aaaCTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATc > 1:1139227/1‑90 (MQ=255)
aaGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTAc < 1:47726/90‑1 (MQ=255)
ggCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGtttt < 2:883360/90‑1 (MQ=255)
cTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGAt < 2:1022764/90‑1 (MQ=255)
gCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGc < 2:30570/90‑1 (MQ=255)
cAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGc < 2:922246/90‑1 (MQ=255)
|
TGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGC > NZ_CP009273/991883‑992055
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ 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
ACGTTACCTTGCTGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGCCACCAGAATCACT > NZ_CP009273/991871‑992068
|
ACGTTACCTTGCTGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGA > SRR3722089.510183/1‑100 (MQ=60)
TGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTG < SRR3722089.61401/100‑1 (MQ=60)
AACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAAC < SRR3722089.509897/100‑1 (MQ=60)
GGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTC > SRR3722089.40542/1‑100 (MQ=60)
GTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTT > SRR3722089.896091/1‑100 (MQ=60)
GTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTG > SRR3722089.764408/1‑100 (MQ=60)
TTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGA < SRR3722089.777138/100‑1 (MQ=60)
GGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATC > SRR3722089.1156552/1‑100 (MQ=60)
AAGTCCGGCCTGACGCAGTGCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATC < SRR3722089.48324/100‑1 (MQ=60)
GCACGCAGGAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTgtctcttatacacatctgacgctgccgacgaccatcttagtgt > SRR3722089.62584/1‑57 (MQ=60)
GAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGCCACCAGAATCACT < SRR3722089.590493/100‑1 (MQ=60)
|
ACGTTACCTTGCTGGAACGCGGCGCGGGCATCAGCGGGCGTCAGGTAAGTGGGTTGGATATCGGTAAACTTAAGTCCGGCCTGACGCAGTGCACGCAGTAAAAGGTTGTGTGAACTGGAACCTTTCTGAAAGGCAACTTTGTGACCTTTAAGATCGGCTACGGTTTTGATCGGGCTGTTTTCTGCCACCAGAATCACT > NZ_CP009273/991871‑992068
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
