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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
639,164 |
G→A |
36.5% |
P63P (CCG→CCA) |
ahpF → |
alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 639,164 | 0 | G | A | 36.5%
| 64.0
/ 63.3
| 63 | P63P (CCG→CCA) | ahpF | alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base G (13/27); new base A (12/11); total (25/38) |
| Fisher's exact test for biased strand distribution p-value = 1.81e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGG > W3110S.gb/639095‑639226
|
ggCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCg < 1:226317/70‑1 (MQ=255)
ggCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCg < 1:327782/70‑1 (MQ=255)
aaaTCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCtt < 1:4100763/69‑1 (MQ=255)
aaaTCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCtt < 1:345181/69‑1 (MQ=255)
aaTCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTcc > 1:4592191/1‑71 (MQ=255)
aaTCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTcc > 1:2008697/1‑71 (MQ=255)
tCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTg < 1:1369392/71‑1 (MQ=255)
cAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATc < 1:1449240/71‑1 (MQ=255)
cAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGATc < 1:1096710/71‑1 (MQ=255)
gAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGATCAc > 1:4000960/1‑71 (MQ=255)
cTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGAt < 1:4160202/65‑1 (MQ=255)
cTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGATc < 1:344292/66‑1 (MQ=255)
tGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTcc < 1:4820691/60‑1 (MQ=255)
tGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGATc < 1:3159504/65‑1 (MQ=255)
gTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAAcc > 1:1754604/1‑71 (MQ=255)
tCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAAccc < 1:2948647/71‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCa < 1:2817748/70‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCa < 1:25896/70‑1 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAg > 1:1098800/1‑71 (MQ=255)
aGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGAt < 1:424363/60‑1 (MQ=255)
aCAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGt > 1:3625777/1‑71 (MQ=255)
tCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAAc < 1:3652551/71‑1 (MQ=255)
aCCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:598613/70‑1 (MQ=255)
aCCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:4986879/70‑1 (MQ=255)
aCCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:3509433/70‑1 (MQ=255)
aCCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCa < 1:2498242/71‑1 (MQ=255)
aCCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCa < 1:1398004/71‑1 (MQ=255)
ccTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAg < 1:4062928/71‑1 (MQ=255)
ccTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAg < 1:4747360/71‑1 (MQ=255)
tttAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCttt < 1:2432496/41‑1 (MQ=255)
tttAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCttt < 1:3789173/41‑1 (MQ=255)
tttAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCtt < 1:854525/40‑1 (MQ=255)
ttAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCa > 1:3419715/1‑67 (MQ=255)
tAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTg < 1:4751409/43‑1 (MQ=255)
aaaGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGAt > 1:2200262/1‑44 (MQ=255)
aaaGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGAt > 1:313809/1‑44 (MQ=255)
aaaGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGAt > 1:4980615/1‑44 (MQ=255)
aaaGAAGATAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGAt > 1:2396407/1‑44 (MQ=255)
aagaagATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGt < 1:887209/56‑1 (MQ=255)
aTAACAGCTTGCCGGTGCGTAAGCCATCTTTCCTGATc < 1:2278854/38‑1 (MQ=255)
tAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTg < 1:4677731/71‑1 (MQ=255)
tAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTg < 1:159145/71‑1 (MQ=255)
tAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTg < 1:1451022/71‑1 (MQ=255)
aaCAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAgg > 1:1993215/1‑47 (MQ=255)
aCAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGc < 1:712272/70‑1 (MQ=255)
aGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAgg > 1:1772705/1‑71 (MQ=255)
aGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAgg > 1:4459165/1‑71 (MQ=255)
cTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAgg > 1:2672397/1‑53 (MQ=255)
tGCCGGTGCGTAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAAc > 1:4106694/1‑47 (MQ=255)
gCCGGTGCGTAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTccc > 1:4637350/1‑71 (MQ=255)
gTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCt > 1:2501784/1‑71 (MQ=255)
gTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCt > 1:4937157/1‑71 (MQ=255)
gTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCt < 1:4858001/71‑1 (MQ=255)
tGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTg < 1:5020408/71‑1 (MQ=255)
tGCGTAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTg < 1:2164873/57‑1 (MQ=255)
gCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTg > 1:253258/1‑70 (MQ=255)
cGTAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTggg > 1:4538052/1‑71 (MQ=255)
gTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:3468170/39‑1 (MQ=255)
gTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:585486/39‑1 (MQ=255)
tAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:2100154/38‑1 (MQ=255)
tAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAAcc > 1:2887507/1‑38 (MQ=255)
tAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAAcc < 1:522888/38‑1 (MQ=255)
tAAGCCATCTTTCCTGATCACCAACCCAGGTTCCAAcc > 1:3838652/1‑38 (MQ=255)
gCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAg > 1:1440633/1‑37 (MQ=255)
gCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAg > 1:781042/1‑37 (MQ=255)
gTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTcccc < 1:2805820/57‑1 (MQ=255)
|
GGCTGAAATCGCAGAACTGTCAGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGG > W3110S.gb/639095‑639226
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
