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 |
|
A2 F28 I3 R2
|
122 |
64.1 |
3058059 |
97.6% |
2984665 |
63.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,523,658 |
C→T |
Q153* (CAA→TAA) |
flk → |
predicted flagella assembly protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,523,658 | 0 | C | T | 100.0%
| 121.1
/ NA
| 41 | Q153* (CAA→TAA) | flk | predicted flagella assembly protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/20); total (21/20) |
TCTCACCGGAGCAATTAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGCAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAAC > minE/1523596‑1523721
|
tctcACCGGAGCAATTAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAAc > 1:137300/1‑66 (MQ=255)
aCCGGAGCAATTAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCAcag > 1:1342609/1‑67 (MQ=255)
ggAGCAATTAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAgcgc > 1:2338691/1‑70 (MQ=255)
gAGCAATTAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAgcgc > 1:353904/1‑69 (MQ=255)
ttAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcgac > 1:1728354/1‑71 (MQ=255)
aaaaaCCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACcaca > 1:1195722/1‑54 (MQ=255)
aaaaCCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGcgcg > 1:1212847/1‑61 (MQ=255)
aaaaCCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcgaccga > 1:1721026/1‑71 (MQ=255)
aaCCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCgaccgacc < 1:1081211/71‑1 (MQ=255)
ttCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcgaccgac > 1:2897596/1‑65 (MQ=255)
ttCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcgaccgac > 1:734319/1‑65 (MQ=255)
ctcACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCtt < 1:2942249/70‑1 (MQ=255)
tcACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCtt < 1:1793158/69‑1 (MQ=255)
tcACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTtta > 1:1837412/1‑71 (MQ=255)
cACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcg < 1:311404/55‑1 (MQ=255)
aCCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcga > 1:906562/1‑55 (MQ=255)
aCCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTttatt < 1:2123507/71‑1 (MQ=255)
aCCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTttatt < 1:565358/71‑1 (MQ=255)
aCCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTttatt < 1:249617/71‑1 (MQ=255)
aCCCTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTttat > 1:1914783/1‑70 (MQ=255)
ccTGTTGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGcgaccga < 1:1580500/57‑1 (MQ=255)
cTGTTGCAGGAAGGGAAGATGGTTATTACGTAACCACagcagc > 1:245807/1‑43 (MQ=38)
ttGCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGaccgaccg < 1:2631268/56‑1 (MQ=255)
gCAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACcggcg > 1:458139/1‑70 (MQ=255)
cAGGAAGGGAAGATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGa < 1:874977/71‑1 (MQ=255)
aGGAAGGGAAGATGGTTATTCC‑TAACCACAGCAGCGCGAGGCGACCGACCGTc < 1:904012/53‑1 (MQ=38)
aagggaagATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGcac < 1:1800988/71‑1 (MQ=255)
agggaagATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGcac > 1:561679/1‑70 (MQ=255)
gaagATGGTTATTCCGTAACCACAGCAGCGCGAGGcgaccga < 1:2699038/42‑1 (MQ=255)
aagATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGTGGAGCACAATgc > 1:1178412/1‑71 (MQ=255)
aagATGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATgc > 1:2730248/1‑71 (MQ=255)
tGGTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCt < 1:1943178/70‑1 (MQ=255)
ggTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACcggcg > 1:2355925/1‑55 (MQ=255)
ggTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGTCGGAGCACAATGCGCTa > 1:1514500/1‑70 (MQ=255)
gTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTaa < 1:1741976/70‑1 (MQ=255)
gTTATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTaa < 1:1658462/70‑1 (MQ=255)
ttATTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTaaaa < 1:1161764/71‑1 (MQ=255)
aTTCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAAc < 1:204351/70‑1 (MQ=255)
tCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAg > 1:1882588/1‑52 (MQ=255)
tCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTaa < 1:1686547/65‑1 (MQ=255)
tCCGTAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTaa < 1:9412/65‑1 (MQ=255)
|
TCTCACCGGAGCAATTAAAAACCATTCTCACCCTGTTGCAGGAAGGGAAGATGGTTATTCCGCAACCACAGCAGCGCGAGGCGACCGACCGTCCTTTATTACCGGCGGAGCACAATGCGCTAAAAC > minE/1523596‑1523721
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
