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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,357,313 |
G→A |
27.6% |
F603F (TTC→TTT) |
yehB ← |
predicted outer membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,357,313 | 0 | G | A | 27.6%
| 78.6
/ 27.4
| 72 | F603F (TTC→TTT) | yehB | predicted outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (18/34); new base A (11/9); total (29/43) |
| Fisher's exact test for biased strand distribution p-value = 1.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.75e-01 |
GGTCAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGATCAT > minE/1357247‑1357377
|
ggTCAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGa < 1:1495713/68‑1 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACt > 1:127662/1‑68 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg < 1:1859435/69‑1 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg < 1:1680940/69‑1 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg < 1:3089455/69‑1 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg > 1:3114177/1‑69 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg < 1:3122348/69‑1 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg < 1:1364666/69‑1 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg > 1:123746/1‑69 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg > 1:3408344/1‑69 (MQ=255)
cAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTg > 1:1055081/1‑69 (MQ=255)
aTTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGAt < 1:2741661/68‑1 (MQ=255)
aTTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGAt < 1:1967859/68‑1 (MQ=255)
aTTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGAt < 1:1994213/68‑1 (MQ=255)
aTTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGAt < 1:500237/68‑1 (MQ=255)
aTTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGAt < 1:616457/68‑1 (MQ=255)
ttCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGAt < 1:1310331/67‑1 (MQ=255)
tCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:221375/69‑1 (MQ=255)
tCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:3291440/69‑1 (MQ=255)
tCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:1555283/69‑1 (MQ=255)
cccAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACt < 1:3068311/69‑1 (MQ=255)
gCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCt < 1:1888516/69‑1 (MQ=255)
gCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCt < 1:1591116/69‑1 (MQ=255)
cTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTa < 1:1739092/69‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:288081/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:2359727/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:2590596/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:1815913/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:1693352/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:3132825/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:3219998/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:3241475/68‑1 (MQ=255)
ttCATTTCCCTGATACTGATAACTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTc < 1:1253966/68‑1 (MQ=255)
ttCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGAt < 1:2454205/68‑1 (MQ=255)
cTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGAt < 1:2308505/64‑1 (MQ=255)
ttGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:2936865/38‑1 (MQ=255)
ttGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:2812197/38‑1 (MQ=255)
ttGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:859506/38‑1 (MQ=255)
ttGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:102531/38‑1 (MQ=255)
ttGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:2009340/38‑1 (MQ=255)
ttGATGACTCAGGTTGACACCATAATTGAACTGATccc < 1:1298689/38‑1 (MQ=255)
gatgaCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGtatta > 1:902569/1‑68 (MQ=255)
gatgaCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGtatta > 1:1990382/1‑68 (MQ=255)
gatgaCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGtatta > 1:512350/1‑68 (MQ=255)
gatgaCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGtat < 1:1169715/66‑1 (MQ=255)
gatgaCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTACTGATAATCCCGtattat > 1:323929/1‑69 (MQ=255)
gatgaCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTACTGATAATCCCGtattat > 1:319813/1‑69 (MQ=255)
aCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGa > 1:393037/1‑69 (MQ=255)
aCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGa > 1:1579032/1‑69 (MQ=255)
aCTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGa > 1:1478538/1‑69 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCtt > 1:292841/1‑35 (MQ=16)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:398085/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:492450/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:2634376/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:3185353/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:1409225/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:1059712/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:1550407/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:302800/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCGGCTTCCAACGGTTCCTGa > 1:2170915/1‑50 (MQ=255)
cTCAGGTTGACCCCATAGTTAAACTGATCCCAGCTTCCAACGGTTCCTGa > 1:1003170/1‑50 (MQ=255)
gTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCa < 1:701398/67‑1 (MQ=255)
gTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCa < 1:1352351/67‑1 (MQ=255)
gTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCa < 1:471382/67‑1 (MQ=255)
gTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCa < 1:367024/67‑1 (MQ=255)
gTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCa < 1:2961393/67‑1 (MQ=255)
gACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAAccc < 1:1328473/69‑1 (MQ=255)
aTAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGatc > 1:537410/1‑69 (MQ=255)
aTAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGatc > 1:31258/1‑69 (MQ=255)
aTAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGatc > 1:2083462/1‑69 (MQ=255)
aTAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGatc > 1:2201617/1‑69 (MQ=255)
aTTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGatcat > 1:1074891/1‑68 (MQ=255)
|
GGTCAAATTCGCCCCAGCTGTCGTTTCATTTCCCTGATGTTGATGACTCAGGTTGACACCATAATTGAACTGATCCCGACTCCCTACTGTTCCTGATAATCCCGTATTATTTGAGGCAAACCCCTGATCAT > minE/1357247‑1357377
|
| 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
