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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,354,061 |
C→T |
7.5% |
G218G (GGG→GGA) |
dcuR ← |
DNA‑binding response regulator in two‑component regulatory system with DcuS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,354,061 | 0 | C | T | 7.5%
| 164.7
/ 3.3
| 53 | G218G (GGG→GGA) | dcuR | DNA‑binding response regulator in two‑component regulatory system with DcuS |
| Reads supporting (aligned to +/- strand): ref base C (26/23); new base T (2/2); total (28/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
CCGTTATTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTATT > W3110S.gb/4353992‑4354125
|
ccGTTATTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGcc > 1:1005130/1‑71 (MQ=255)
aTTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt < 1:331823/70‑1 (MQ=255)
aTTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt > 1:3117771/1‑70 (MQ=255)
aTTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt > 1:4172439/1‑70 (MQ=255)
atatTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGTCCCGTGACGCCAt < 1:1887845/71‑1 (MQ=255)
atatTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:4248137/71‑1 (MQ=255)
tatTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt > 1:2437324/1‑70 (MQ=255)
tatTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:1860181/70‑1 (MQ=255)
tatTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATa < 1:2825292/71‑1 (MQ=255)
gTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATg < 1:538063/70‑1 (MQ=255)
tagtgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTg < 1:2623679/70‑1 (MQ=255)
agtgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGAt < 1:2971686/65‑1 (MQ=255)
agtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATaa > 1:2079369/1‑56 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGa > 1:941544/1‑43 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGa > 1:164708/1‑43 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATaa > 1:3883381/1‑51 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATa < 1:3488771/50‑1 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATg < 1:215965/53‑1 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACa < 1:154985/67‑1 (MQ=255)
tgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGAt > 1:1538015/1‑71 (MQ=255)
ttCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGAtgt > 1:3129270/1‑71 (MQ=255)
cTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt > 1:2426907/1‑45 (MQ=255)
cTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGa > 1:3467321/1‑66 (MQ=255)
cTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTgg > 1:2099502/1‑71 (MQ=255)
tGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGa > 1:170535/1‑59 (MQ=255)
ccTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATa > 1:44288/1‑50 (MQ=255)
ccTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGc < 1:4506097/69‑1 (MQ=255)
cTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAg < 1:445314/70‑1 (MQ=255)
cTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAg < 1:318369/70‑1 (MQ=255)
tGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTgg > 1:4471717/1‑52 (MQ=255)
gAATACGGTAACGGTAAACTGGACGTCCCGTGACGCAATAATGGATACTGGTGAACAAGATGTGGCAGtt > 1:3498050/1‑70 (MQ=255)
gAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATa < 1:1367288/40‑1 (MQ=255)
aaTACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGAtg > 1:3510339/1‑61 (MQ=255)
aaTACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:781996/38‑1 (MQ=255)
aaTACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCa < 1:3067829/66‑1 (MQ=255)
aTACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGTACAAGATGTGGCAGTTg < 1:2379276/69‑1 (MQ=255)
tACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGa > 1:641636/1‑69 (MQ=255)
acggtaacggtaAACTGGACGCCCCGTGACGCCATAATg < 1:210466/39‑1 (MQ=255)
cggtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAg > 1:1902121/1‑63 (MQ=255)
gtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc > 1:159818/1‑70 (MQ=255)
taacggtaaACTGGACGCCCCGTGACTCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagcca < 1:3364557/71‑1 (MQ=255)
aacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc > 1:3528762/1‑68 (MQ=255)
acggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagccag < 1:4492900/70‑1 (MQ=255)
gtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGa > 1:1838582/1‑68 (MQ=255)
taaACTGGACGCCCCGTGACGCCATAATGGATACTGGTTAACAAGATGTGGCAGTTGACCAGCCAGATGAg < 1:926536/71‑1 (MQ=255)
taaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGAt > 1:192337/1‑68 (MQ=255)
aaaCTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAg > 1:780366/1‑44 (MQ=255)
aaCTGGCCGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAgg > 1:62086/1‑70 (MQ=255)
aaCTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAg > 1:4637666/1‑69 (MQ=255)
aCTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGc < 1:510727/49‑1 (MQ=255)
cTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGAtg > 1:117031/1‑44 (MQ=255)
cTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGa > 1:463150/1‑63 (MQ=255)
tGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTg < 1:605260/52‑1 (MQ=255)
gACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTAtt < 1:2675728/69‑1 (MQ=255)
|
CCGTTATTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTATT > W3110S.gb/4353992‑4354125
|
| 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
