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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
594,454 |
T→C |
33.3% |
K71K (AAA→AAG) |
cusR ← |
DNA‑binding response regulator in two‑component regulatory system with CusS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 594,454 | 0 | T | C | 33.3%
| 40.0
/ 34.6
| 39 | K71K (AAA→AAG) | cusR | DNA‑binding response regulator in two‑component regulatory system with CusS |
| Reads supporting (aligned to +/- strand): ref base T (10/16); new base C (8/5); total (18/21) |
| Fisher's exact test for biased strand distribution p-value = 1.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
AACTCCAGCCCCTTGACGCGATGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCATAATATCGAGGATT > W3110S.gb/594389‑594523
|
aaCTCCAGCCCCTTGACGCGATGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCCTTAt > 1:441725/1‑70 (MQ=255)
cTCCAGCCCCTTGACGCGATGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTgg < 1:911489/71‑1 (MQ=255)
cTTGACGCGATGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTa < 1:3426721/71‑1 (MQ=255)
gACGCGATGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCCTTATTGGCGGAGCGTaa < 1:3594221/69‑1 (MQ=255)
aTGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCttt < 1:3696681/48‑1 (MQ=255)
gTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCtt < 1:2809695/45‑1 (MQ=255)
gTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCtt < 1:380839/45‑1 (MQ=255)
gTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCtt < 1:2050579/45‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTaa < 1:2207682/60‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACg < 1:3893812/70‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACg < 1:1708120/70‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGa < 1:2174567/71‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGa < 1:2256765/71‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGa < 1:2585037/71‑1 (MQ=255)
ttCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGa < 1:3095457/71‑1 (MQ=255)
cAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGata > 1:154722/1‑71 (MQ=255)
cAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGa > 1:3613867/1‑69 (MQ=255)
cAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGAACGata > 1:1203211/1‑71 (MQ=255)
tGCCAAGCGCGGAAAGCAACAGAATCGGCATCCCttt < 1:1292655/37‑1 (MQ=255)
ccAAGCGCGGTAAGCAACAGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGcc > 1:3224372/1‑71 (MQ=255)
cgcgGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCa > 1:1755418/1‑71 (MQ=255)
gTAAGCAACAGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGa < 1:1857903/52‑1 (MQ=255)
tAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTcc < 1:3666408/71‑1 (MQ=255)
tAAGCAACAGAATCGGCATCCCCTTATTGGCGGAGCGTa < 1:1603709/39‑1 (MQ=255)
cAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATg > 1:4070906/1‑40 (MQ=255)
cAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCgg > 1:111665/1‑69 (MQ=255)
cAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCgg > 1:2637146/1‑69 (MQ=255)
cAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCgg > 1:3302053/1‑69 (MQ=255)
aCAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGgcagc < 1:27531/71‑1 (MQ=255)
aCAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGgcagc < 1:2547865/71‑1 (MQ=255)
aCAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGgcagc < 1:1478955/71‑1 (MQ=255)
aCAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCAGgcagc < 1:519818/71‑1 (MQ=255)
cAGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGata > 1:1734013/1‑46 (MQ=255)
cAGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGata > 1:141797/1‑46 (MQ=255)
cAGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGata > 1:1685064/1‑46 (MQ=255)
cAGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGata > 1:3490509/1‑46 (MQ=255)
cAGAATCGGCATCACCTTATTGGCGGAGCGTAACATGCGCACGata > 1:3181142/1‑46 (MQ=255)
aGAATCGGCATCCCCTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCat < 1:2362522/71‑1 (MQ=255)
aGAATCGGCATCCCCTTATTGGCGGAGCATAACATGCGCACGata > 1:2749779/1‑45 (MQ=255)
aTCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGgcagca < 1:781507/67‑1 (MQ=255)
ggCATCCCCTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCATAATATc < 1:647322/71‑1 (MQ=255)
ccTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCATAATATCGAGGAt > 1:3460641/1‑71 (MQ=255)
ccTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCATAATATCGAGGAt > 1:3224244/1‑71 (MQ=255)
cTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCATAATATCGAGGAtt < 1:328960/71‑1 (MQ=255)
|
AACTCCAGCCCCTTGACGCGATGTTCAATGGTGCCAAGCGCGGTAAGCAACAGAATCGGCATCCCTTTATTGGCGGAGCGTAACATGCGCACGATATCCCAGCCGTTCACGTCCGGCAGCATAATATCGAGGATT > W3110S.gb/594389‑594523
|
| 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
