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 |
|
A6 F28 I3 R2
|
24 |
47.7 |
2431847 |
96.1% |
2337004 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,078,255 |
C→T |
D88N (GAT→AAT) |
uxaA ← |
altronate hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,078,255 | 0 | C | T | 98.1%
| 164.8
/ ‑3.9
| 52 | D88N (GAT→AAT) | uxaA | altronate hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (28/23); total (28/24) |
| Fisher's exact test for biased strand distribution p-value = 4.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
GATCTGCACTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATCCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGCCGCAATATCCGCCA > minE/2078187‑2078320
|
gATCTGCACTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCa < 1:813701/71‑1 (MQ=255)
cACTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAg < 1:1509767/66‑1 (MQ=255)
cACTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCg < 1:1301338/70‑1 (MQ=255)
aCTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCt > 1:69956/1‑71 (MQ=255)
aCTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCt > 1:325990/1‑71 (MQ=255)
aCTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCt > 1:455331/1‑71 (MQ=255)
ttCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCg > 1:846169/1‑67 (MQ=255)
ttCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCt > 1:2116594/1‑69 (MQ=255)
gATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTGAGATCg < 1:316271/62‑1 (MQ=255)
ccGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTc < 1:1689883/65‑1 (MQ=255)
ccGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTc < 1:123962/65‑1 (MQ=255)
ccGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTc < 1:1458919/65‑1 (MQ=255)
ccGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATAATGATTCAGATCGCTCAGATTCGt < 1:716447/67‑1 (MQ=255)
ttGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCa > 1:1052197/1‑56 (MQ=255)
ttGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCa > 1:151151/1‑56 (MQ=255)
ttGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTg > 1:478593/1‑64 (MQ=255)
ttGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTg > 1:29289/1‑64 (MQ=255)
ttGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTAt > 1:13879/1‑71 (MQ=255)
tGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTAtt > 1:1323486/1‑71 (MQ=255)
gcgcAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTAt < 1:947444/69‑1 (MQ=255)
cgcAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATtg < 1:271252/70‑1 (MQ=255)
cgcAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATtg < 1:2401164/70‑1 (MQ=255)
cgcAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATtg < 1:2057810/70‑1 (MQ=255)
caggcagATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTc < 1:919851/56‑1 (MQ=255)
aggcagATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTggg > 1:333266/1‑71 (MQ=255)
ggcagATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGc < 1:1668732/71‑1 (MQ=255)
gcagATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcg > 1:1643533/1‑71 (MQ=255)
agATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgt > 1:1003941/1‑70 (MQ=255)
agATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgt > 1:1705371/1‑70 (MQ=255)
gATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtga < 1:1228538/71‑1 (MQ=255)
gATCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtga < 1:1370396/71‑1 (MQ=255)
tCCTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtgaac > 1:1933482/1‑71 (MQ=255)
ccTGAAATTCAGGTTGATAGCGATACTGATTCAGATCGc > 1:1441840/1‑39 (MQ=37)
cTGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtgaacg < 1:834132/70‑1 (MQ=255)
tGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTa > 1:1634067/1‑54 (MQ=255)
tGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTa > 1:184939/1‑54 (MQ=255)
tGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTa > 1:378083/1‑54 (MQ=255)
tGAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTa > 1:55187/1‑54 (MQ=255)
gAAAATCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtgaacgtg > 1:2114146/1‑70 (MQ=255)
gAAAATCAGGTTGATAGCGATACTGATCCAGATCGCTCAGAt < 1:556978/42‑1 (MQ=255)
aaaaTCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtgaacgtgaa < 1:1301840/71‑1 (MQ=255)
aaaaTCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtgaacgtgaa < 1:2054051/71‑1 (MQ=255)
aaaaTCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGcgtgaacgtg < 1:693568/69‑1 (MQ=255)
tCAGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTAtt > 1:610313/1‑50 (MQ=255)
aGGTTGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCt < 1:475619/70‑1 (MQ=255)
ttGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGGACACCTGCCg > 1:2117373/1‑71 (MQ=255)
tGATAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGc > 1:1477130/1‑68 (MQ=255)
tAGCGATACTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGCCGCa > 1:1965823/1‑69 (MQ=255)
aCTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACGCCTGCCGCAATATCCGc > 1:1603956/1‑70 (MQ=255)
cTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGCCGCAATATCCGcc > 1:171605/1‑70 (MQ=255)
cTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGCCGCAATATCCGCCa < 1:1641754/71‑1 (MQ=255)
cTGATTCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGCCGCAATATCCGCCa < 1:1436260/71‑1 (MQ=255)
|
GATCTGCACTTCACGATCTGCCGCTTGCGCAGGCAGATCCTGAAAATCAGGTTGATAGCGATACTGATCCAGATCGCTCAGATTCGTGCGCGTATTGTGGGCGTGAACGTGAACACCTGCCGCAATATCCGCCA > minE/2078187‑2078320
|
| 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
