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 |
1,754,025 |
G→A |
31.3% |
P507L (CCA→CTA) |
ydhV ← |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,754,025 | 0 | G | A | 31.3%
| 94.2
/ 56.5
| 67 | P507L (CCA→CTA) | ydhV | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base G (22/24); new base A (17/4); total (39/28) |
| Fisher's exact test for biased strand distribution p-value = 1.57e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.98e-01 |
TTTGGTTTCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGAACATACAGTTAA > W3110S.gb/1753958‑1754091
|
tttGGTTTCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGc > 1:2630253/1‑70 (MQ=255)
tGGTTTCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCaa < 1:950562/70‑1 (MQ=255)
tCATCGTAAGCATCTTCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCa < 1:4291629/65‑1 (MQ=255)
tCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg < 1:1160458/70‑1 (MQ=255)
tCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg > 1:4745025/1‑70 (MQ=255)
tCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg > 1:3915792/1‑70 (MQ=255)
tCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg > 1:3662717/1‑70 (MQ=255)
tCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg > 1:1524277/1‑70 (MQ=255)
cATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg < 1:4392616/69‑1 (MQ=255)
cGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGc > 1:393709/1‑59 (MQ=255)
cGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAAcc > 1:2091474/1‑70 (MQ=255)
aGCATCTTCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCaa > 1:3641042/1‑69 (MQ=255)
aGCATCTTCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCaa > 1:4356575/1‑69 (MQ=255)
aGCATCTTCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAAt > 1:899574/1‑70 (MQ=255)
aGCATCTTCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAAt > 1:4082021/1‑70 (MQ=255)
aGCATCTTCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATa < 1:1810457/71‑1 (MQ=255)
aGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATaa < 1:4273136/71‑1 (MQ=255)
aGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATaa < 1:4309534/71‑1 (MQ=255)
aGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATaa < 1:4798503/71‑1 (MQ=255)
cATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCgg < 1:1428444/60‑1 (MQ=255)
cATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATaa < 1:2188758/69‑1 (MQ=255)
atcatcAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGc > 1:3481547/1‑57 (MQ=255)
tCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTg > 1:4240355/1‑70 (MQ=255)
tCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGa > 1:3836369/1‑71 (MQ=255)
tCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGa > 1:1540260/1‑71 (MQ=255)
tCAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGa > 1:2926544/1‑71 (MQ=255)
cAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGa < 1:1471443/70‑1 (MQ=255)
cAGAACCAAAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGa > 1:3207101/1‑70 (MQ=255)
cAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGtt < 1:28204/67‑1 (MQ=255)
cAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGa < 1:3639460/69‑1 (MQ=255)
aCC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATgg > 1:3571840/1‑42 (MQ=255)
aCC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATggg < 1:492815/71‑1 (MQ=255)
aaaaGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATg > 1:2882143/1‑71 (MQ=255)
aaaGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGaa > 1:4826531/1‑47 (MQ=255)
aaaGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGaa > 1:4657200/1‑47 (MQ=255)
aaaGTTCTTTCGCCACTTCACGTTGCAGTTTCAATAGCAAGCCGGaa > 1:4402382/1‑47 (MQ=255)
aaGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCg < 1:2010249/71‑1 (MQ=255)
tCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGc < 1:302245/69‑1 (MQ=255)
aCTTCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACg > 1:4175939/1‑71 (MQ=255)
ttCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTg < 1:1974572/43‑1 (MQ=255)
ttCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTg < 1:5067740/43‑1 (MQ=255)
ttCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTg < 1:1305993/43‑1 (MQ=255)
ttCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGt < 1:4601182/57‑1 (MQ=255)
tCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGtt > 1:3140483/1‑71 (MQ=255)
tCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGtt > 1:490897/1‑71 (MQ=255)
tCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGtt > 1:2109874/1‑71 (MQ=255)
tCACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGt > 1:2147133/1‑70 (MQ=255)
tCACGTTGCAGTTTCAATAGCAAGCCGGAACAAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGtt > 1:3251479/1‑71 (MQ=255)
cACGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGtt > 1:2093664/1‑70 (MQ=255)
aCGTTGCAGTTTCAATAGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGa < 1:2117772/71‑1 (MQ=255)
gCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGAACAt < 1:1166488/70‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATggg < 1:603826/38‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATgg < 1:4664316/37‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATgg < 1:1417654/37‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATgg < 1:1272451/37‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATgg < 1:1051309/37‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATgg < 1:2058887/37‑1 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCa > 1:4089340/1‑55 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCa > 1:544670/1‑55 (MQ=255)
tttCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCa > 1:772165/1‑55 (MQ=255)
tCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGt > 1:752358/1‑37 (MQ=255)
tCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCAt > 1:1691056/1‑46 (MQ=255)
tCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCAt > 1:895385/1‑46 (MQ=255)
tCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGAACATACAGtt > 1:1559106/1‑70 (MQ=255)
tCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGAACATACAGtt > 1:406535/1‑70 (MQ=255)
agtGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGt > 1:1789547/3‑55 (MQ=255)
aaTGGCAAGCCGGAACCAATAAAGTTGATATGGGt > 1:826811/1‑35 (MQ=255)
aaTGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGAACATACAGTTaa > 1:4252549/1‑70 (MQ=255)
|
TTTGGTTTCATCGTAAGCATCTTCAGAACC‑AAAAAGTTCTTTCGCCACTTCACGTTGCAGTTTCAATGGCAAGCCGGAACCAATAAAGTTGATATGGGTATGCGTCATGCAGTCACGGTTGAACATACAGTTAA > W3110S.gb/1753958‑1754091
|
| 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
