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 |
|
A13 F69 I0 R1
|
1426 |
148.0 |
5875178 |
97.4% |
5722423 |
123.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,668,185 |
A→G |
7.3% |
L335P (CTG→CCG) |
yhjA ← |
putative cytochrome C peroxidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,668,185 | 0 | A | G | 7.3%
| 180.4
/ 3.8
| 55 | L335P (CTG→CCG) | yhjA | putative cytochrome C peroxidase |
| Reads supporting (aligned to +/- strand): ref base A (26/25); new base G (2/2); total (28/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.08e-01 |
AAAGTCTTTTTTCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGCGGATAGACTTCGAGGAACTGCGTTTT > NC_000913/3668067‑3668321
|
aaaGTCTTTTTTCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCAt > 1:1179394/1‑145 (MQ=255)
aaaGTCTTTTTTCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCAt < 2:1179394/145‑1 (MQ=255)
tCTTTTTTCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCaaa > 1:451475/1‑149 (MQ=255)
ttttttCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCAtttt > 4:725396/1‑122 (MQ=255)
ttttttCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCAtttt < 3:725396/122‑1 (MQ=255)
tttttCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATgg < 2:451475/149‑1 (MQ=255)
cAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCAtttt > 3:116890/1‑116 (MQ=255)
cAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCAtttt < 4:116890/116‑1 (MQ=255)
cccAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAgc > 2:790018/1‑105 (MQ=255)
cccAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAgc < 1:790018/105‑1 (MQ=255)
ccAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGc > 3:462125/1‑149 (MQ=255)
gAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATggg < 3:171767/126‑1 (MQ=255)
gAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATggg > 4:171767/1‑126 (MQ=255)
gAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGtt > 1:1025140/1‑147 (MQ=255)
gAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGtt < 2:1025140/147‑1 (MQ=255)
cGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtctc < 4:462125/149‑1 (MQ=255)
gTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTa < 4:1407973/113‑1 (MQ=255)
gTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTa > 3:1407973/1‑113 (MQ=255)
gTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCa > 2:318668/1‑149 (MQ=255)
aataatACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCaa < 1:318668/149‑1 (MQ=255)
ataCCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtc > 1:29294/1‑132 (MQ=255)
ataCCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtc < 2:29294/132‑1 (MQ=255)
caccaTGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtct > 3:315121/1‑129 (MQ=255)
caccaTGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtct < 4:315121/129‑1 (MQ=255)
caTGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCcgc < 3:102571/81‑1 (MQ=255)
caTGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCcgc > 4:102571/1‑81 (MQ=255)
aCAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCcgc < 3:172017/77‑1 (MQ=255)
aCAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCcgc > 4:172017/1‑77 (MQ=255)
aaGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCaaa < 1:1180225/124‑1 (MQ=255)
aaGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCaaa > 2:1180225/1‑124 (MQ=255)
ttGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCAtt > 4:772470/1‑61 (MQ=255)
ttGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCAtt < 3:772470/61‑1 (MQ=255)
ttatCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGtaattaat < 4:298684/99‑1 (MQ=255)
ttatCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGtaattaat > 3:298684/1‑99 (MQ=255)
tttAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGtaattaa < 1:1029312/93‑1 (MQ=255)
tttAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGtaattaa > 2:1029312/1‑93 (MQ=255)
ataatTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCaaa < 1:1009174/67‑1 (MQ=255)
ataatTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCaaa > 2:1009174/1‑67 (MQ=255)
ataatTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGc > 2:1396374/1‑143 (MQ=255)
ataatTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGc < 1:1396374/143‑1 (MQ=255)
atTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGCGGAt < 2:214482/144‑1 (MQ=255)
atTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGCGGAt > 1:214482/1‑144 (MQ=255)
ccTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGttt > 2:987468/1‑82 (MQ=255)
ccTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGttt < 1:987468/82‑1 (MQ=255)
cTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGCGGATAGACTTCGAGGAAc > 3:1339572/1‑149 (MQ=255)
ttttttCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtc > 2:811156/1‑82 (MQ=255)
ttttttCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtc < 1:811156/82‑1 (MQ=255)
ttttttCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtc < 2:1306862/82‑1 (MQ=255)
ttttttCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTtc > 1:1306862/1‑82 (MQ=255)
aaatGCGCTGACGGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGCGGATAGACTTCGAGGAACTGCGtttt > 3:1370186/4‑149 (MQ=255)
aatGCGCTGACGGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTc > 1:24505/3‑106 (MQ=255)
aatGCGCTGACGGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTc < 2:24505/104‑1 (MQ=255)
aatGCGCTGACGGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGaaa < 2:644159/114‑1 (MQ=255)
tCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATggg > 3:509694/1‑41 (MQ=255)
tCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATggg < 4:509694/41‑1 (MQ=255)
|
AAAGTCTTTTTTCAGCCCCAACGGTTCAAAGGAACGTCCGCCGAGAATAATACCACCATGACAAGTTGCACATTTATTATCTTTAAATAATTGATAGCCTTTTTTCTGTTGCGCCGTCAGCGCATTTTCATCTCCGCGCAACCATTTATCAAATGGGGAATCCGGCGTAATTAATGTTTTCTCAAATTCAGCAATGGCATCAGTAATATTTTCGCCACTGAAACCTTGCGGATAGACTTCGAGGAACTGCGTTTT > NC_000913/3668067‑3668321
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
