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 |
|
A107 F1 I1 R1
|
19 |
326.9 |
20855348 |
93.1% |
19416328 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,250,824 |
T→C |
H640R (CAC→CGC) |
napA ← |
nitrate reductase, periplasmic, large subunit |
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,250,824 | 0 | T | C | 99.5%
| 820.9
/ ‑5.0
| 200 | H640R (CAC→CGC) | napA | nitrate reductase, periplasmic, large subunit |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (91/108); total (91/109) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
Only 100 of 268 total aligned reads displayed.
TTACCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGTGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTCATCGT > REL606/2250752‑2250899
|
ttACCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATcgtgaccgcgac < 2:706578/76‑1 (MQ=255)
ttACCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGGGCCCGATcgtgaacgcgac > 1:3460828/1‑76 (MQ=255)
tACCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTTTGGTAGTCATCGAACGGGGGCCGATCgtgaccccgacc > 2:3219257/1‑76 (MQ=255)
tACCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCgtgaccgcgacc < 2:7770117/76‑1 (MQ=255)
aCCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGtgaccgcgaccg < 1:3618249/76‑1 (MQ=255)
ccGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCCTCGAACGGTGCCAGGTCGtgaccgcgagcgg > 1:7284274/1‑75 (MQ=255)
cGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGaccgcgaccgcg < 1:8294748/76‑1 (MQ=255)
gTTCACCACCGGCCAGCGCAGCCCGCGCGCTTTGTGGTAGTCATCGCACGGTGCCAGAACCTGGCCCCGGCCGCGa > 2:2372998/1‑76 (MQ=255)
gTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGaccgcgaccgcgc > 1:6657756/1‑75 (MQ=255)
gTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGAccgcgaccgcga > 1:1839755/1‑76 (MQ=255)
ttCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGGGCCAGATCGTGACcgcgaccgcgac > 1:9623546/1‑76 (MQ=255)
ttCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGGCATCGAAAGGGGCCAGATCGTGACcgcgaccgcgac > 2:6295974/1‑76 (MQ=255)
caccacCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCa < 2:5291667/76‑1 (MQ=255)
caccacCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCa < 1:5934167/76‑1 (MQ=255)
cccaccGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCaa < 1:9913432/75‑1 (MQ=255)
ccaccGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCaaa < 1:4690841/76‑1 (MQ=255)
accGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAAcc < 2:7364467/76‑1 (MQ=255)
accGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAAcc < 2:8852462/76‑1 (MQ=255)
ccGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCa < 1:2578812/76‑1 (MQ=255)
ccGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCa > 2:1456320/1‑76 (MQ=255)
ccGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCCTGACCGCGACCGCGACCAAACCa > 1:6138179/1‑76 (MQ=255)
cGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGCCCAAACCAt > 1:5696366/1‑76 (MQ=255)
cGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCAt < 2:6056828/76‑1 (MQ=255)
ggCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATg > 2:3322110/1‑76 (MQ=255)
gcccAGCGCGAACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGAGCGTGACCGCGACCGCGACCAAACCATg < 1:4264992/74‑1 (MQ=255)
gCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGc > 1:4573602/1‑76 (MQ=255)
ccAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCg < 2:3744898/76‑1 (MQ=255)
ccAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCg < 1:631758/76‑1 (MQ=255)
ccAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCg < 2:5896518/76‑1 (MQ=255)
cAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGt > 2:4928900/1‑76 (MQ=255)
cAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGt > 2:4724244/1‑76 (MQ=255)
cAGAGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGt > 2:8063608/1‑76 (MQ=255)
aGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTa > 2:1943033/1‑76 (MQ=255)
aGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTa < 2:697191/76‑1 (MQ=255)
aGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACAATGCGTa > 2:4444985/1‑76 (MQ=255)
gcgcAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTAc > 1:9309988/1‑76 (MQ=255)
gcgcAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTAc < 1:1133083/76‑1 (MQ=255)
cgcAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTAct > 1:1296132/1‑76 (MQ=255)
cgcAGACCGCGCGCTTTGTGCTAGTCATCGAACGGTGCCAGATCGTGACCGCGCCCGCGACCAAACCATGCGTAct < 1:3762300/76‑1 (MQ=255)
cgcAGACCGCGCGCTTGGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTAct < 1:6620204/76‑1 (MQ=255)
gcAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGAACCAACCATGAGTActc > 2:9426091/1‑76 (MQ=255)
cAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTActct < 2:10333519/76‑1 (MQ=255)
cAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACAAAACCATGCGTActct > 2:5069853/1‑76 (MQ=255)
aGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCtt > 2:6021387/1‑76 (MQ=255)
gACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTc > 2:4573271/1‑76 (MQ=255)
gACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTc < 1:9734193/76‑1 (MQ=255)
cgcgcgCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGaa < 1:2716153/76‑1 (MQ=255)
cgcgcTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACa > 2:2834048/1‑76 (MQ=255)
cgcgcTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACa < 2:1284088/76‑1 (MQ=255)
cgcgcTTGATAGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAAcg < 2:5723511/76‑2 (MQ=255)
gcgcTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAg < 1:5065651/76‑1 (MQ=255)
cgcTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGc > 2:6878886/1‑76 (MQ=255)
cTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGccc > 2:3645094/1‑76 (MQ=255)
cTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGccc < 2:2952398/76‑1 (MQ=255)
tttGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCt > 1:7453259/1‑76 (MQ=255)
ttGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCtt < 2:2916911/76‑1 (MQ=255)
tgGTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCttttt < 2:5801747/76‑1 (MQ=255)
ggTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTg < 1:10343352/76‑1 (MQ=255)
ggTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTg > 2:9768324/1‑76 (MQ=255)
ggTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTg < 1:35348/76‑1 (MQ=255)
ggTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTg < 1:5409448/76‑1 (MQ=255)
ggTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTg < 1:8379038/76‑1 (MQ=255)
gTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGc < 2:10138254/76‑1 (MQ=255)
gTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGc < 2:524293/76‑1 (MQ=255)
gTAGTCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGc > 1:8720745/1‑76 (MQ=255)
gTAGTCATCGAACGGTACCAGATCGTGCCCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGc < 1:7909554/76‑1 (MQ=255)
tCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGAt < 1:2026811/76‑1 (MQ=255)
tCATCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGAt < 1:8063608/76‑1 (MQ=255)
aTCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAg > 1:8869196/1‑76 (MQ=255)
aTCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAg < 1:5901665/76‑1 (MQ=255)
aTCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAg < 2:9112568/76‑1 (MQ=255)
aTCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAg < 1:605065/76‑1 (MQ=255)
aTCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAg > 2:9598542/1‑76 (MQ=255)
tCGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGa < 2:7984106/76‑1 (MQ=255)
cGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGaa < 2:40908/76‑1 (MQ=255)
cGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGaa < 2:2133935/76‑1 (MQ=255)
cGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGaa > 2:8128303/1‑76 (MQ=255)
cGAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGaa > 2:3829568/1‑76 (MQ=255)
gAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAg > 1:9652314/1‑76 (MQ=255)
gAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAg < 2:4306715/76‑1 (MQ=255)
gAACGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAg > 2:7683248/1‑76 (MQ=255)
aaCGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGc > 2:6577760/1‑76 (MQ=255)
aCGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGcc < 1:7484758/76‑1 (MQ=255)
aCGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGcc < 2:6717182/76‑1 (MQ=255)
cGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGccc > 1:6971379/1‑76 (MQ=255)
cGGTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGccc < 1:906214/76‑1 (MQ=255)
cGGGGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGccc < 1:6525112/76‑1 (MQ=255)
gTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAg < 1:6431179/76‑1 (MQ=255)
gTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAg > 1:2936547/1‑76 (MQ=255)
gTGCCAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAg > 1:4453579/1‑76 (MQ=255)
cAGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTcg > 1:8209295/1‑76 (MQ=255)
aGATCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGaa < 1:4772233/65‑1 (MQ=255)
tCGTGACCGCGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCggg > 1:242051/1‑76 (MQ=255)
gtgaccgcgaccGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGAt > 2:7931928/1‑76 (MQ=255)
gaccgcgaccgcGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTc > 2:2587426/1‑76 (MQ=255)
gaccgcgaccgcGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTc > 1:2345336/1‑76 (MQ=255)
gaccgcgaccgcGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTc > 2:4773948/1‑76 (MQ=255)
gaccgcgaccgcGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTc > 2:335435/1‑76 (MQ=255)
accgcgaccgcgACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTCa > 1:4102801/1‑76 (MQ=255)
ccgcgaccgcgaCCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTCAt < 1:1511690/76‑1 (MQ=255)
|
TTACCGTTCACCACCGGCCAGCGCAGACCGCGCGCTTTGTGGTAGTCATCGAACGGTGCCAGATCGTGACCGTGACCGCGACCAAACCATGCGTACTCTTCGAACAGCCCTTTTTGCAGATAGAAGCCCAGCTCGCGGGATTCATCGT > REL606/2250752‑2250899
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A