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 |
|
A9 F48 I1 R1
|
82 |
50.4 |
1709896 |
99.0% |
1692797 |
139.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,042,847 |
G→T |
P101Q (CCG→CAG) |
yqfA ← |
hemolysin‑III family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,042,847 | 0 | G | T | 98.2%
| 192.8
/ ‑2.7
| 57 | P101Q (CCG→CAG) | yqfA | hemolysin‑III family protein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base T (29/27); total (29/28) |
| Fisher's exact test for biased strand distribution p-value = 4.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.38e-01 |
GTCACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACGGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAACAGCAGGATCATAC > NC_000913/3042718‑3042970
|
gTCACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGt > 2:536219/1‑140 (MQ=255)
gTCACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGt > 2:790506/1‑140 (MQ=255)
gTCACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTGTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGt > 2:59476/1‑140 (MQ=255)
cACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTc < 1:80778/140‑1 (MQ=255)
cACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTc > 1:601397/1‑140 (MQ=255)
aTAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATc < 1:444915/140‑1 (MQ=255)
aTAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATc > 1:811221/1‑140 (MQ=255)
aTAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATc < 1:611735/140‑1 (MQ=255)
aTAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATc > 1:419671/1‑140 (MQ=255)
aTTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAg < 2:710194/140‑1 (MQ=255)
ttGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTa > 1:285392/1‑140 (MQ=255)
gAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTaaa < 1:432093/140‑1 (MQ=255)
aaaCAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCa > 2:355743/1‑140 (MQ=255)
aaTACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCcaca > 1:539715/1‑140 (MQ=255)
aTACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACAt > 1:256072/1‑140 (MQ=255)
aTACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACAt > 1:65311/1‑140 (MQ=255)
aTACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACAt > 1:327022/1‑140 (MQ=255)
cccAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACAtttt < 2:811221/140‑1 (MQ=255)
ccAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCAGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACAttttt > 2:842959/1‑140 (MQ=255)
gCAATGTCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGcc > 2:583927/1‑140 (MQ=255)
gCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGcc < 2:470424/140‑1 (MQ=255)
gCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGcc > 1:470424/1‑140 (MQ=255)
gCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGcc > 2:164275/1‑140 (MQ=255)
gCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGcc > 1:385074/1‑140 (MQ=255)
gCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGcc < 1:355743/140‑1 (MQ=255)
aaTGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGccct > 2:22326/1‑139 (MQ=255)
aaTGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCg < 2:419671/140‑1 (MQ=255)
aaTGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCg < 1:120001/140‑1 (MQ=255)
aaTGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCg > 1:623260/1‑140 (MQ=255)
aaTGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATAGTCAAATTTCTTCAGCCACATTTTTGCCCg < 2:601397/140‑1 (MQ=255)
aTGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGt < 1:709680/140‑1 (MQ=255)
tGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGtt > 2:89919/1‑140 (MQ=255)
tGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGtt > 1:4501/1‑140 (MQ=255)
tGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGtt > 2:4260/1‑140 (MQ=255)
ccAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTtga > 1:813808/1‑140 (MQ=255)
ccAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTtga > 1:818106/1‑140 (MQ=255)
ccAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGaa < 1:536219/140‑1 (MQ=255)
ccAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGaa < 1:790506/140‑1 (MQ=255)
ccAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGaa < 1:734342/140‑1 (MQ=255)
cAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAAt > 1:37193/1‑140 (MQ=255)
tAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCg < 1:811401/140‑1 (MQ=255)
aatcaACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGATCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATaga < 2:53707/139‑1 (MQ=255)
tcaACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGc > 1:429683/1‑140 (MQ=255)
cccGCGCGCTAACGGAGAATCCAGACCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCg > 2:646637/1‑140 (MQ=255)
cgcgcgCTAACGGAGAATCCAGCCCCACCAGCAAAAACGGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGaa < 1:280773/140‑1 (MQ=255)
cgcgcTAACGGAGAATCTAGCCCCACCAGCAAAAACTGCGGCTAGGTTCCGGCAATCAACAGGAAAACAGCGCAATGGTCAAAATTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGTGTGAGAGATCGTCGaatt > 2:511025/1‑138 (MQ=255)
cgcgcTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGc > 2:437869/1‑140 (MQ=255)
gcgcTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCg < 2:65311/140‑1 (MQ=255)
gcgcTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCg < 1:338114/140‑1 (MQ=255)
cTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAgg < 1:583927/140‑1 (MQ=255)
cTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAgg < 1:842959/140‑1 (MQ=255)
cTAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAgg < 2:285392/140‑1 (MQ=255)
atAACGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGGAAATAGCGCAATGGTCGAATATCTTCAGCCACATTTCTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAgg < 2:673650/139‑1 (MQ=255)
aCGGAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAAc < 2:37193/140‑1 (MQ=255)
ggAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAAcag < 1:335247/140‑1 (MQ=255)
ggAGAATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAAcag < 1:628851/140‑1 (MQ=255)
agaATCCAGCCCCACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAAcagca < 2:256072/140‑1 (MQ=255)
ccccACCAGCAAAAACTGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAACAGCAGGATCATAc > 1:119575/1‑140 (MQ=255)
|
GTCACCAGAGATAAAATTTTGAATCGGTGCGCGATGGTCAGTTTAAACAGAATACCCAGCAATGCCAGGCTCCAGATAACAATCATCAACCCGCGCGCTAACGGAGAATCCAGCCCCACCAGCAAAAACGGCGTGTAGGTTCCGGCAATCAACAGGTAAATAGCGCAATGGTCAAATTTCTTCAGCCACATTTTTGCCCGTTGATGAGGAATGGCGTGATAGAGCGTCGAAGCGAGGAACAGCAGGATCATAC > NC_000913/3042718‑3042970
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
