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 |
|
A34 F5 I0 R1
|
408 |
67.6 |
2494072 |
96.8% |
2414261 |
139.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,193,973 |
A→C |
8.5% |
W106G (TGG→GGG) |
nudJ ← |
bifunctional thiamine pyrimidine pyrophosphate hydrolase and thiamine pyrophosphate hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,193,973 | 0 | A | C | 8.5%
| 155.0
/ 7.2
| 47 | W106G (TGG→GGG) | nudJ | bifunctional thiamine pyrimidine pyrophosphate hydrolase and thiamine pyrophosphate hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (19/24); new base C (2/2); total (21/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.76e-01 |
TTAGATGACACCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCTGATGCC > NC_000913/1193827‑1194120
|
ttAGATGACACCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAAc < 2:413591/149‑1 (MQ=255)
aTGACACCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGgca < 4:190260/149‑1 (MQ=255)
gACACCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGgcagc > 4:38225/1‑149 (MQ=255)
acacCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGgcagca > 3:500393/1‑149 (MQ=255)
acCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCCACGGCAGCAGt > 3:503259/1‑149 (MQ=255)
acCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCCACGGCAGCAGt > 3:412201/1‑149 (MQ=255)
cccTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTc > 1:22521/1‑149 (MQ=255)
tGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGatat < 3:227238/149‑1 (MQ=255)
aaaGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCt > 1:26269/1‑149 (MQ=255)
gCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCa < 1:17306/149‑1 (MQ=255)
ccAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCAt < 2:26269/149‑1 (MQ=255)
gTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAg > 2:321925/1‑149 (MQ=255)
tAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGc < 1:321925/149‑1 (MQ=255)
cGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTc < 1:139762/149‑1 (MQ=255)
aaTCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGc > 2:357738/1‑149 (MQ=255)
catcTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCata < 3:360982/149‑1 (MQ=255)
atcTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCatat > 1:20552/1‑149 (MQ=255)
ctcCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATAttt < 2:337071/149‑1 (MQ=255)
cGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTgctcaa < 1:621016/149‑1 (MQ=255)
cGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAAt < 4:500393/149‑1 (MQ=255)
cTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAagag < 2:22521/149‑1 (MQ=255)
aacaacGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGc > 3:34933/1‑149 (MQ=255)
aacGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCaaa > 1:29276/1‑149 (MQ=255)
gAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAAc > 3:98792/1‑149 (MQ=255)
cTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGt < 3:119303/149‑1 (MQ=255)
tttCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGt > 3:265645/1‑84 (MQ=255)
tttCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGt < 4:265645/84‑1 (MQ=255)
tttCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGtt > 1:206766/1‑149 (MQ=255)
tttCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGtt < 2:357500/149‑1 (MQ=255)
caGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGgcg < 3:38225/149‑1 (MQ=255)
aacgaaGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCAc < 2:399950/149‑1 (MQ=255)
acgaaGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACt < 1:235853/149‑1 (MQ=255)
gaaGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGa > 1:538548/1‑149 (MQ=255)
ttGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATa < 4:520535/149‑1 (MQ=255)
ttGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATa < 2:29276/149‑1 (MQ=255)
cGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGaa < 2:20552/149‑1 (MQ=255)
gCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAAt > 2:442883/1‑149 (MQ=255)
aaTTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGtt > 2:256250/1‑149 (MQ=255)
ttcGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGaaa > 3:222666/1‑88 (MQ=255)
ttcGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGaaa < 4:222666/88‑1 (MQ=255)
ttcGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCt > 4:576283/1‑149 (MQ=255)
cGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTgc < 3:75746/149‑1 (MQ=255)
cTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCt < 4:34933/149‑1 (MQ=255)
gACCCCACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCTGa < 4:412201/149‑1 (MQ=255)
gACCCCACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCTGa < 4:503259/149‑1 (MQ=255)
ccAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCTGATGc > 1:153943/1‑149 (MQ=255)
cAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTGGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCTGATGcc > 4:452342/1‑149 (MQ=255)
|
TTAGATGACACCCTTTGTAAAAGGCCAGTTAAAATCGCCAATCATCTCCAGCGGATAACGTTGCCCGCTTTGATAACAACGAATACTTTCCGCCACCAGCGGCGAACGAAGATTTGACGCCTGTAAAATTTCTTCGGCGCTGACCCAACGGCAGCAGTCGATATCGCTGTCATGAGGCTGGGTCGGGCATATTTGCTCAAGCTCAATGGCAAAGAGGAAACGCAAAAACGGCGTTTTATCTGGCGCAATCCACTGATGCATACGAATAAAGTGTTGCGGCTGCGCGCTGATGCC > NC_000913/1193827‑1194120
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
