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 F999 I1 R1
|
225 |
156.4 |
11709729 |
83.8% |
9812752 |
75.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,509,958 |
Δ1 bp |
intergenic (‑195/+314) |
yhfZ ← / ← trpS |
hypothetical protein/tryptophan tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,509,956 | 0 | T | . | 98.6%
| 310.0
/ ‑3.3
| 70 | intergenic (‑193/+316) | yhfZ/trpS | hypothetical protein/tryptophan tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base . (14/55); minor base A (1/0); total (15/55) |
| Fisher's exact test for biased strand distribution p-value = 2.14e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTCATCTATGGTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCCTTTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAGGAA > NC_000913/3509881‑3510023
|
cTCATCTATGGTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCct > 2:3045396/1‑76 (MQ=255)
cATCTATGGTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCcttc < 2:772010/76‑2 (MQ=255)
tATGGTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCtttt < 2:2764360/76‑1 (MQ=255)
tGGTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCtttttt < 1:5054252/76‑1 (MQ=255)
ggTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTg < 1:3589416/76‑1 (MQ=255)
gTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGa > 2:4891903/1‑76 (MQ=255)
gTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGa > 1:5278612/1‑76 (MQ=255)
ttttCAAGCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGAt < 2:5458196/76‑1 (MQ=255)
tttCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATa < 1:335441/76‑1 (MQ=255)
tttCAATCGATTACCGCAATTTTCAACCAACAAATAACGGGCCAGCGTCGTGATGACGACG‑CATTCTTGTTTGATa > 1:4496207/1‑76 (MQ=255)
ttCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATaa < 1:3514960/76‑1 (MQ=255)
ttCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATaa > 2:3956156/1‑76 (MQ=255)
tCAATCGATTACCGCGCTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATaaa < 2:3374242/76‑1 (MQ=255)
tCAATCGATTACCGCAGTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATaaa < 2:5099834/76‑1 (MQ=255)
tCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATaaa < 2:4632780/76‑1 (MQ=255)
cAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAAc < 2:4547560/76‑1 (MQ=255)
cAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAAc < 1:1726544/76‑1 (MQ=255)
aaTCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACg < 1:3702672/76‑1 (MQ=255)
aaTCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACg < 1:3991962/76‑1 (MQ=255)
aTCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGt < 2:5176224/76‑1 (MQ=255)
tCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGtt < 1:5405125/76‑1 (MQ=255)
cGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTc < 1:4296664/76‑1 (MQ=255)
cGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTc < 1:5584524/76‑1 (MQ=255)
aTTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGa < 2:44708/76‑1 (MQ=255)
ttACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATACACGTTCGAc > 2:5417815/1‑76 (MQ=255)
ttACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGAc < 1:3600680/76‑1 (MQ=255)
ttACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGAc < 2:4502783/76‑1 (MQ=255)
tACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACg > 2:5005608/1‑76 (MQ=255)
tACCGCACTTTGCACCCAACAAATAACTGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACg < 1:3248862/76‑1 (MQ=255)
tccGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGc < 1:5682238/75‑1 (MQ=255)
cGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCat < 1:4143239/76‑1 (MQ=255)
cGCACGTTTCCCCCAACAAACAACGGGCCAGCGGCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGCCGCat < 2:4858350/76‑1 (MQ=255)
cTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCataata < 2:4806870/76‑1 (MQ=255)
cTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCataata > 2:4052777/1‑76 (MQ=255)
cTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCataata < 2:3787642/76‑1 (MQ=255)
ttttCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCAtaataa < 2:5012032/76‑1 (MQ=255)
tCACCCAACAAATAACGGTCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAAtt < 1:3336196/76‑1 (MQ=255)
tCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAAtt > 1:2173935/1‑76 (MQ=255)
ccAACAAATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCa < 2:401436/76‑1 (MQ=255)
caacaaATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAg < 1:3125369/76‑1 (MQ=255)
acaaATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTa < 1:3918895/76‑1 (MQ=255)
caaATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTaa < 2:469531/76‑1 (MQ=255)
caaATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTaa < 1:2472476/76‑1 (MQ=255)
caaATAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTaa < 1:3056712/76‑1 (MQ=255)
aaaTAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTaaa < 2:2097747/76‑1 (MQ=255)
aaTAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAAt < 2:4477269/76‑1 (MQ=255)
aaTAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGATCGACGCATAATAAATTTTCAGTAAAt < 2:2943591/76‑1 (MQ=255)
aTAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAAtt > 1:3623376/1‑76 (MQ=255)
tAACGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTg > 2:3920674/1‑76 (MQ=255)
aaCGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGa < 1:2295198/76‑1 (MQ=255)
cGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAat > 1:5098441/1‑76 (MQ=255)
cGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAat < 1:5417085/76‑1 (MQ=255)
cGGGCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAat > 1:3532045/1‑76 (MQ=255)
gggCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAANNAATTTTCAGTAAATTGAata < 1:3523881/76‑1 (MQ=255)
gCCAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATAtt < 1:968482/76‑1 (MQ=255)
cAGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTta < 2:4289571/76‑1 (MQ=255)
aGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCTACGCATAATAAATTTTCAGTAAATTGAATATTtat < 1:4731756/76‑1 (MQ=255)
aGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTtat < 2:1741983/76‑1 (MQ=255)
aGCGTCGTGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTtat < 1:846318/76‑1 (MQ=255)
cgtGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCtt < 2:1772535/76‑1 (MQ=255)
cgtGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCtt < 2:2220136/76‑1 (MQ=255)
gtGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTc > 1:1738320/1‑76 (MQ=255)
gtGATGACGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTc < 2:228312/76‑1 (MQ=255)
tgatgaCGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCa < 2:2173935/76‑1 (MQ=255)
tgatgaCGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCa > 1:918014/1‑76 (MQ=255)
gatgaCGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAg < 2:5278611/76‑1 (MQ=255)
gatgaCGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAg < 1:105481/76‑1 (MQ=255)
gatgaCGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAg > 2:3290226/1‑76 (MQ=255)
gatgaCGACACC‑TGCTTTGTGGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATGGATATCTTcct < 2:5321604/76‑3 (MQ=255)
atgaCGACGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAgg < 2:2888727/76‑1 (MQ=255)
gacgacGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAGGaa < 2:4496206/76‑1 (MQ=255)
gacgacGCC‑TTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAGGaa < 2:3058811/76‑1 (MQ=255)
|
CTCATCTATGGTTTTCAATCGATTACCGCACTTTTCACCCAACAAATAACGGGCCAGCGTCGTGATGACGACGCCTTTCTTTTTTGATAAACGTTCGACGCATAATAAATTTTCAGTAAATTGAATATTTATATCTTCAGGAA > NC_000913/3509881‑3510023
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
