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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
312,696 |
G→A |
23.7% |
D59D (GAC→GAT) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 312,696 | 0 | G | A | 23.7%
| 143.3
/ 41.2
| 80 | D59D (GAC→GAT) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base G (26/35); new base A (7/12); total (33/47) |
| Fisher's exact test for biased strand distribution p-value = 7.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACTGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGT > minE/312626‑312764
|
cACTGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCgtg > 1:1985889/1‑71 (MQ=255)
aCTGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCgtgt > 1:4809147/1‑71 (MQ=255)
aCTGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCgtgt > 1:123631/1‑71 (MQ=255)
aCTGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCgtg < 1:1597281/70‑1 (MQ=255)
tGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCgtgt > 1:4639839/1‑69 (MQ=255)
ttAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTg > 1:2363662/1‑71 (MQ=255)
ttAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTg > 1:105193/1‑71 (MQ=255)
ttAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTg < 1:3220642/71‑1 (MQ=255)
gtggagGACATATACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTg < 1:3392200/68‑1 (MQ=25)
agagGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCa > 1:1133247/1‑71 (MQ=255)
gagGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCAc > 1:3497441/1‑71 (MQ=255)
ggACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTg < 1:4116180/71‑1 (MQ=255)
ggACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTg < 1:277181/71‑1 (MQ=255)
aCATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGtt < 1:3322075/71‑1 (MQ=255)
cATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt < 1:3734500/71‑1 (MQ=255)
cATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt < 1:2185003/71‑1 (MQ=255)
aTGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGtttt > 1:1843486/1‑71 (MQ=255)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCg < 1:4250009/70‑1 (MQ=255)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCg < 1:4256768/70‑1 (MQ=255)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCg < 1:3021689/70‑1 (MQ=255)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGGCCTGCACTGtttt < 1:2766564/68‑1 (MQ=255)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATc > 1:2500976/1‑56 (MQ=37)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCa < 1:2033213/61‑1 (MQ=255)
tACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCa < 1:5588538/61‑1 (MQ=255)
cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt > 1:35407/1‑71 (MQ=255)
cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt < 1:2673768/71‑1 (MQ=255)
cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt < 1:1243728/71‑1 (MQ=255)
cATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCAt < 1:1173121/71‑1 (MQ=255)
tCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATc < 1:4368823/70‑1 (MQ=37)
cAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGt > 1:1705101/1‑60 (MQ=37)
cAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGt > 1:3756695/1‑60 (MQ=37)
cAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGt > 1:1745536/1‑60 (MQ=37)
aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTg < 1:5672140/53‑1 (MQ=255)
aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTg < 1:1798601/53‑1 (MQ=255)
aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAg < 1:5294707/70‑1 (MQ=255)
aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAg < 1:3614084/70‑1 (MQ=255)
aGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAg < 1:3307584/70‑1 (MQ=255)
gTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAgcgc < 1:3808628/71‑1 (MQ=255)
ttATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCAGCgtgt < 1:3216678/46‑1 (MQ=255)
ttATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCgtgt < 1:2168653/46‑1 (MQ=255)
tATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCg > 1:979089/1‑71 (MQ=255)
tATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCg > 1:5689768/1‑71 (MQ=255)
tATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCg > 1:2702726/1‑71 (MQ=255)
aTCGATACCGTTCATATTCTGTTCGATACGCTGTGTCACCGTGTCCTg > 1:3241964/1‑48 (MQ=255)
aTCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTg > 1:1435535/1‑48 (MQ=255)
aTCGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGtc > 1:1652766/1‑54 (MQ=37)
cGATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCa > 1:248889/1‑59 (MQ=25)
agATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg > 1:3245035/2‑71 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg < 1:5188206/70‑1 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg < 1:125038/70‑1 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg < 1:4475126/70‑1 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg < 1:1161302/70‑1 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg < 1:269216/70‑1 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGt < 1:388676/71‑1 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGTTCTGCGCATCAGCGCCcgga < 1:5384541/70‑2 (MQ=255)
gATACCGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCcggt < 1:1290593/70‑2 (MQ=255)
aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt > 1:4070017/1‑52 (MQ=255)
aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt > 1:2680137/1‑52 (MQ=255)
aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGttt > 1:45095/1‑52 (MQ=255)
aTACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCgggg > 1:2838786/1‑69 (MQ=255)
aCCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTcc < 1:58486/40‑1 (MQ=255)
aCCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTcc < 1:2491616/40‑1 (MQ=255)
aCCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTag > 1:1469681/1‑70 (MQ=255)
ccGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTc > 1:1595539/1‑51 (MQ=255)
cGTTCATATTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagttt < 1:3017300/71‑4 (MQ=255)
gTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTaggagg > 1:3180705/1‑71 (MQ=255)
ttCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGcc < 1:3628965/59‑1 (MQ=255)
atatTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCgg < 1:2095546/70‑1 (MQ=255)
tatTCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagt < 1:3632931/63‑2 (MQ=255)
ttCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCa > 1:4439182/1‑48 (MQ=255)
ttCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTagga > 1:3892778/1‑62 (MQ=255)
ttCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATc < 1:3153770/47‑1 (MQ=255)
tCTGTTCGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATagtt > 1:1346194/1‑59 (MQ=255)
cTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATc < 1:180377/70‑1 (MQ=255)
cTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCg > 1:2623153/1‑71 (MQ=255)
cGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGgag < 1:2043722/62‑1 (MQ=255)
cGATAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAg < 1:1227074/42‑1 (MQ=255)
gATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTa > 1:356855/1‑68 (MQ=255)
aTAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATag < 1:1605184/51‑1 (MQ=255)
aTAACCTGCGTCACCGTATCCTGCACGGTCTGCGCATCAGCGCCCGGATag < 1:2063184/51‑1 (MQ=255)
ccTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGt < 1:3274199/61‑1 (MQ=255)
gtgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcggcgg > 1:2464280/1‑70 (MQ=255)
tgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCcggc < 1:758756/67‑1 (MQ=255)
tgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGt < 1:3920667/70‑1 (MQ=255)
tgtCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATAGTTACTGCCGGCGGt < 1:4952196/70‑1 (MQ=255)
aCCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAAt > 1:1350858/1‑71 (MQ=255)
aCCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAAt > 1:4572112/1‑71 (MQ=255)
gtgtCCTGCACTGTTTTCGCATCAGCGCCGGTGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGt < 1:4952369/71‑1 (MQ=255)
gtgtCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCg > 1:1962058/1‑70 (MQ=255)
tgtCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTa > 1:2581657/1‑51 (MQ=255)
|
CACTGTTAGAGGACATGTACATCAGGTTATCGATACCGTTCATATTCTGTTCGATAACCTGTGTCACCGTGTCCTGCACTGTTTTCGCATCAGCGCCGGGGTAGGAGGCGGAGATCGTTACTGCCGGCGGTGCAATCGT > minE/312626‑312764
|
| 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
