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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,032,019 |
C→T |
13.2% |
D650N (GAC→AAC) |
zntA ← |
zinc, cobalt and lead efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,032,019 | 0 | C | T | 13.2%
| 101.0
/ 7.1
| 38 | D650N (GAC→AAC) | zntA | zinc, cobalt and lead efflux system |
| Reads supporting (aligned to +/- strand): ref base C (15/17); new base T (3/2); total (19/19) |
| Fisher's exact test for biased strand distribution p-value = 6.60e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01 |
CAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCGTCA > W3110S.gb/4031950‑4032086
|
cAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTTGGCGGTTTCCAGCGCCACGTc < 1:4309275/70‑1 (MQ=255)
cAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCt > 1:4487418/1‑71 (MQ=255)
aaTCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTTtg > 1:2388422/1‑71 (MQ=255)
aaTCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCt < 1:290435/70‑1 (MQ=255)
aaTCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCt < 1:1741929/70‑1 (MQ=255)
aTTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGcc > 1:1427408/1‑71 (MQ=255)
ccGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTg > 1:4472887/1‑70 (MQ=255)
cAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATcc > 1:3681123/1‑71 (MQ=255)
gtggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGa > 1:1631044/1‑71 (MQ=255)
gtggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGa < 1:4207948/71‑1 (MQ=255)
gtggtTATGGGTTAATGCTGCGTAGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGa > 1:808592/1‑71 (MQ=255)
tggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGAt < 1:1802231/71‑1 (MQ=255)
ggtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATg > 1:2157694/1‑71 (MQ=255)
gtTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGAt < 1:3929125/69‑1 (MQ=255)
tGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCtgt > 1:2233791/1‑41 (MQ=255)
aTGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCttt < 1:4045237/70‑1 (MQ=255)
tgctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCa < 1:1153004/71‑1 (MQ=255)
tgctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCa < 1:699221/71‑1 (MQ=255)
ctgcGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGa < 1:1730086/54‑1 (MQ=255)
cGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGc < 1:2363432/70‑1 (MQ=255)
cGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGc < 1:2085978/70‑1 (MQ=255)
gTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAAt > 1:3817932/1‑45 (MQ=255)
gTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTg < 1:3704190/71‑1 (MQ=255)
ggcggTTTCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCg > 1:931925/1‑65 (MQ=255)
ggcggTTTCCAGCGCCACGTGTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCa > 1:3803386/1‑62 (MQ=255)
ggcggTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGgcg > 1:1916718/1‑71 (MQ=255)
gcggTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGc < 1:4366890/38‑1 (MQ=255)
ggTTTCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGcgt > 1:3203625/1‑71 (MQ=255)
gTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATc < 1:556946/60‑1 (MQ=255)
tttCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTc < 1:171447/56‑1 (MQ=255)
ttCCAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCt < 1:1169568/52‑1 (MQ=255)
ttCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCt > 1:3950414/1‑61 (MQ=255)
cAGCGCCACGTTTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTa < 1:489303/70‑1 (MQ=255)
cAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTaa > 1:3319671/1‑71 (MQ=255)
gcCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATAcc < 1:406489/71‑1 (MQ=255)
gcCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATAcc < 1:152481/71‑1 (MQ=255)
aCGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCGt > 1:3761080/1‑70 (MQ=255)
cGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTaa > 1:3835217/1‑63 (MQ=255)
cGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCGTCa > 1:2348051/1‑71 (MQ=255)
|
CAATCATTTGCACCAGGCCGCGCAGGTGGTTATGGGTTAATGCTGCGTCGGCGGTTTCCAGCGCCACGTCTGTGCCGCTACCCATTGCAATCCCGATGGCGGCAGCTTTCATCGCTGGCGCGTCGTTAATACCGTCA > W3110S.gb/4031950‑4032086
|
| 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
