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 |
|
A3 F1 I1 R1
|
502 |
34.8 |
1912488 |
98.2% |
1878063 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,459,938 |
T→C |
I41T (ATT→ACT) |
gspF → |
Type II secretion system protein GspF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,459,938 | 0 | T | C | 100.0%
| 163.3
/ NA
| 45 | I41T (ATT→ACT) | gspF | Type II secretion system protein GspF |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (24/21); total (24/21) |
GCAAGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATATTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCTTTTCACCCG > NC_000913/3459861‑3460013
|
gCAAGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCg > 2:651696/1‑81 (MQ=255)
gCAAGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCg > 1:651700/1‑81 (MQ=255)
gCAAGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCg > 1:651698/1‑81 (MQ=255)
aaGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGcc < 1:651651/81‑1 (MQ=255)
aGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGccc < 1:651652/81‑1 (MQ=255)
gATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGccccc > 2:651704/1‑80 (MQ=255)
aTCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCaa < 1:651653/81‑1 (MQ=255)
aTCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCaa < 2:651654/81‑1 (MQ=255)
gATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGt > 1:651699/1‑81 (MQ=255)
aTGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGt < 1:651655/80‑1 (MQ=255)
gCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCg > 1:651695/1‑81 (MQ=255)
aCGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCggg < 2:651656/79‑1 (MQ=255)
cGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAg > 2:651702/1‑80 (MQ=255)
gATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTa < 1:651657/81‑1 (MQ=255)
aTGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTaa < 1:651658/81‑1 (MQ=255)
aTGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTaa < 2:651659/81‑1 (MQ=255)
tGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTaaa < 1:651660/81‑1 (MQ=255)
aaCGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTaaaaa > 2:651727/1‑81 (MQ=255)
cGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAaca < 1:651661/81‑1 (MQ=255)
cAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGt > 2:651716/1‑81 (MQ=255)
aGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTc < 2:651662/81‑1 (MQ=255)
gCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGc > 1:651718/1‑81 (MQ=255)
aCGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGccc > 2:651711/1‑81 (MQ=255)
aCGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGccc < 1:651663/81‑1 (MQ=255)
cTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAg > 2:651706/1‑80 (MQ=255)
cTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAATTCGGGAGTAAAAACACGTCGCCCGAgg < 2:651664/81‑1 (MQ=255)
cGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGAt < 2:651665/80‑1 (MQ=255)
ggCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGAt > 2:651729/1‑79 (MQ=255)
gCTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAg > 2:651717/1‑81 (MQ=255)
cTGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGc < 1:651666/81‑1 (MQ=255)
tGCGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGc > 2:651725/1‑80 (MQ=255)
cGTGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCa > 1:651722/1‑80 (MQ=255)
tGAAGAAGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAg > 1:651708/1‑81 (MQ=255)
gaagaaGGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGt > 1:651707/1‑81 (MQ=255)
agaagGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTg > 1:651713/1‑80 (MQ=255)
gaagGGCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGaa > 1:651724/1‑81 (MQ=255)
gCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGAc < 2:651669/81‑1 (MQ=255)
gCTTTTCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGAc < 1:651668/81‑1 (MQ=255)
gCTTGTCCTGCTGGATACTCGCCCCCAAAAAGGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGAc < 2:651667/81‑1 (MQ=255)
ttCCTGCTGGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCtt > 1:651715/1‑81 (MQ=255)
ctgctgGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCtttt < 2:651670/80‑1 (MQ=255)
ctgGATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCTTTTCAcc > 1:651714/1‑81 (MQ=255)
ggATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCTTTTCACCCg > 2:651712/1‑81 (MQ=255)
ggATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCTTTTCACCCg > 1:651721/1‑81 (MQ=255)
gATACTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCTTTTCAccc < 1:651671/79‑1 (MQ=255)
|
GCAAGGGATCATTGATGCTAACGATGAACGTCAGGCACGACTGCGGCTGCGTGAAGAAGGGCTTTTCCTGCTGGATATTCGCCCCCAAAAAAGTTCGGGAGTAAAAACACGTCGCCCGAGGATCAGCCATAGTGAACTGACGCTTTTCACCCG > NC_000913/3459861‑3460013
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
