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 |
608,064 |
G→T |
27.5% |
T730T (ACC→ACA) |
pflB ← |
pyruvate formate lyase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 608,064 | 0 | G | T | 27.5%
| 152.6
/ 37.5
| 69 | T730T (ACC→ACA) | pflB | pyruvate formate lyase I |
| Reads supporting (aligned to +/- strand): ref base G (27/23); new base T (8/11); total (35/34) |
| Fisher's exact test for biased strand distribution p-value = 4.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01 |
AGTAATAACGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAA > minE/607995‑608131
|
aGTAATAACGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACTGATgg < 1:87811/71‑1 (MQ=255)
aGTAATAACGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATgg < 1:3814349/71‑1 (MQ=255)
aataaCATCCTGTTGCTGTTCACGGGTCAGTGCGTTGAAGCGCACGGCGTAGCCAGAGACACGCATTGTCa < 1:569736/71‑1 (MQ=255)
ataaCGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAg < 1:472346/71‑1 (MQ=255)
ataaCGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAg > 1:1064665/1‑71 (MQ=255)
ataaCATCCTGTTGCTGTTCACGGGTCAGTGCGTTGAAGCGCACGGCGTAGCCAGAGACACGGATTGTCAg > 1:4040379/1‑71 (MQ=255)
taaCATCCTGTTGCTGTTCACGGGTCAGTGCGTTGAAGCGCACGGCGTAGCCAGAGACACGGATTGTCa < 1:3450180/69‑1 (MQ=255)
aCGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCa > 1:2340301/1‑67 (MQ=255)
gTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCg > 1:3563115/1‑71 (MQ=255)
gTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCg > 1:5527442/1‑71 (MQ=255)
tCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGt < 1:5225139/62‑1 (MQ=255)
ctgctgctgTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCa > 1:753132/1‑62 (MQ=255)
ctgctgctgTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGa > 1:2966344/1‑70 (MQ=255)
ctgctgctgTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGa > 1:3375138/1‑70 (MQ=255)
ctgctgctgTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGa > 1:1178530/1‑70 (MQ=255)
ctgctgcagTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGa > 1:562899/1‑70 (MQ=255)
tgctgctgTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCt < 1:1232043/64‑1 (MQ=255)
ctgTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATAttttt < 1:1119205/71‑1 (MQ=255)
ttCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTcc < 1:1488244/70‑1 (MQ=255)
tCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCgg > 1:2144533/1‑71 (MQ=255)
tCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCgg > 1:5385737/1‑71 (MQ=255)
tCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCgg > 1:3291109/1‑71 (MQ=255)
cTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAg > 1:4205704/1‑52 (MQ=255)
aGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATAttttt < 1:5332446/62‑1 (MQ=255)
gTCAGTGCGTTGAAGCGCACGGCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCgg > 1:3904211/1‑65 (MQ=9)
gTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTc > 1:4713787/1‑71 (MQ=255)
gTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTc < 1:2381112/71‑1 (MQ=255)
tCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTcc < 1:4341197/71‑1 (MQ=255)
tCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTcc < 1:1067665/71‑1 (MQ=255)
aGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGtt < 1:862411/65‑1 (MQ=255)
aGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGtt < 1:5478999/65‑1 (MQ=255)
aGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCAt > 1:4465790/1‑71 (MQ=255)
gCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGt < 1:2426693/40‑1 (MQ=255)
cGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATcg > 1:2599153/1‑71 (MQ=255)
cgTTGAAGCGCACGGCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTcc < 1:5500462/55‑1 (MQ=12)
ttGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTc < 1:1855915/53‑1 (MQ=255)
ttGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTc < 1:1169838/53‑1 (MQ=255)
gAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCa > 1:3090896/1‑62 (MQ=255)
gAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCg < 1:1841906/70‑1 (MQ=255)
aaCGTACTGCGTAGCCAGATACAGGGATGGTCAGCTGCGGATATTTTTcc < 1:4784597/50‑1 (MQ=255)
aCGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGagca < 1:2574704/71‑1 (MQ=255)
aCGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGag > 1:4723853/1‑69 (MQ=255)
tACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATAttt < 1:1550897/42‑1 (MQ=255)
cggCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCAtt > 1:2496566/3‑71 (MQ=12)
cggCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCAt > 1:2145640/3‑70 (MQ=12)
gCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTcc < 1:4827450/42‑1 (MQ=255)
gCGTAGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTc > 1:3894100/1‑71 (MQ=16)
cGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCAt > 1:4987806/1‑52 (MQ=255)
cGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCAttt < 1:2534990/69‑1 (MQ=255)
cGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCa > 1:686846/1‑71 (MQ=255)
aGCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCga > 1:611247/1‑70 (MQ=12)
gCCAGAGACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCgat > 1:204410/1‑69 (MQ=12)
agagACACGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtc < 1:3476824/70‑1 (MQ=9)
aGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtca > 1:4707475/1‑71 (MQ=255)
gagacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcat < 1:1890052/68‑1 (MQ=9)
gagacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcat < 1:1208217/68‑1 (MQ=9)
gagacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcat < 1:3047823/68‑1 (MQ=9)
tACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcatc < 1:4459557/70‑1 (MQ=255)
tACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtcatc < 1:3986411/70‑1 (MQ=255)
gacacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATtcatta > 1:2583400/2‑69 (MQ=9)
acacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTtc > 1:2752349/1‑66 (MQ=255)
acacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCAc > 1:125761/1‑71 (MQ=255)
acacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCAc > 1:378263/1‑71 (MQ=255)
cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg < 1:5515929/71‑1 (MQ=12)
cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg < 1:3994210/71‑1 (MQ=12)
cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg < 1:2610403/71‑1 (MQ=12)
cacGGATTGTCAGGTTAGGATATTTTTCCGGGTGCTCGATGGCATCCAGCAGCATTTCCCGATTCATTACg < 1:2878476/71‑1 (MQ=12)
cacGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACg > 1:1900190/1‑71 (MQ=255)
cGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGtt < 1:724340/71‑1 (MQ=255)
ggATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGtt > 1:2256425/1‑70 (MQ=255)
gATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTaa > 1:3215964/1‑71 (MQ=255)
|
AGTAATAACGTCCTGCTGCTGTTCTTTAGTCAGCGAGTTGAAACGTACTGCGTAGCCAGATACACGGATGGTCAGCTGCGGATATTTTTCCGGGTTTTCCATCGCGTCGAGCAGCATTTCACGGTTCATCACGTTAA > minE/607995‑608131
|
| 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
