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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,291,258 |
C→T |
23.4% |
G326D (GGC→GAC) |
yejO ← |
predicted autotransporter outer membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,291,258 | 0 | C | T | 23.4%
| 152.6
/ 43.0
| 77 | G326D (GGC→GAC) | yejO | predicted autotransporter outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (28/31); new base T (6/12); total (34/43) |
| Fisher's exact test for biased strand distribution p-value = 4.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATAATTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGTGA > W3110S.gb/2291188‑2291327
|
aTAATTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGc > 1:4045432/1‑71 (MQ=255)
aaTTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGc > 1:4328899/1‑69 (MQ=255)
atttatttGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAg > 1:3256631/1‑71 (MQ=255)
atttatttGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAg > 1:2587983/1‑71 (MQ=255)
ttatttGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGcc > 1:2045718/1‑71 (MQ=255)
tttGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCa < 1:3576583/70‑1 (MQ=255)
tttGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCa < 1:4601644/70‑1 (MQ=255)
gCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGAc < 1:1453312/67‑1 (MQ=255)
cTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAg < 1:709/71‑1 (MQ=255)
tCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAgcg > 1:408303/1‑71 (MQ=255)
tCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAgcg > 1:2160692/1‑71 (MQ=255)
cATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAgcgc > 1:1201610/1‑71 (MQ=255)
tGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCa < 1:1346626/58‑1 (MQ=255)
aCCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGcc < 1:4313123/71‑1 (MQ=255)
aCCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGc > 1:4081959/1‑70 (MQ=255)
aCCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGc < 1:3446055/70‑1 (MQ=255)
aCCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGc < 1:1879775/70‑1 (MQ=255)
cTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGtt < 1:1434345/60‑1 (MQ=255)
cTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAt < 1:4151299/71‑1 (MQ=255)
tCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAg < 1:1668066/49‑1 (MQ=255)
tCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAg < 1:556394/49‑1 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGc > 1:2627038/1‑44 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCAttgt > 1:2593419/1‑71 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCAttgt > 1:2942508/1‑71 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGa > 1:2510234/1‑53 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttgt < 1:3861234/71‑1 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttgt > 1:2765253/1‑71 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAtt < 1:1272775/69‑1 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAtt < 1:528165/69‑1 (MQ=255)
aTGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGa < 1:4218956/70‑1 (MQ=255)
ccATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGa > 1:1801246/1‑46 (MQ=255)
ccATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAAc > 1:1495918/1‑71 (MQ=255)
catcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttgttg < 1:2670103/65‑1 (MQ=255)
atcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGcc < 1:2793040/40‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGtt < 1:3025314/47‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGGGCGGCCATTGTTGATAACCat < 1:1645828/71‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGcc < 1:4237263/39‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTa < 1:2956005/48‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAgc < 1:4296432/50‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttg < 1:4332204/60‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttg < 1:98545/60‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCat < 1:1834119/71‑1 (MQ=255)
catTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATaa > 1:4010711/1‑66 (MQ=255)
catTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATaa > 1:3624197/1‑66 (MQ=255)
atTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCa > 1:2911856/1‑39 (MQ=255)
atTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCata > 1:895429/1‑70 (MQ=255)
ttCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAg > 1:2846185/1‑46 (MQ=255)
ttCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATAtt < 1:3472151/71‑1 (MQ=255)
cccTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAg > 1:1730185/1‑44 (MQ=255)
cccTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAg > 1:4213168/1‑44 (MQ=255)
cccTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATAtttt > 1:3507751/1‑71 (MQ=255)
cccTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATAtttt > 1:2316861/1‑71 (MQ=255)
ccTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTc < 1:1861526/71‑1 (MQ=255)
tctGACTGAAACGTTAACCATTGTGCCAGCCCAGACg < 1:4331634/37‑1 (MQ=255)
ctgactgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCa > 1:2705237/1‑69 (MQ=255)
tgactgaAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCa > 1:1816351/1‑68 (MQ=255)
tgactgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCa > 1:2396941/1‑68 (MQ=255)
actgaAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:4490949/68‑1 (MQ=255)
actgaAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:236632/68‑1 (MQ=255)
actgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:2640029/68‑1 (MQ=255)
actgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:3394212/68‑1 (MQ=255)
ctgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGcgcg < 1:1041205/40‑1 (MQ=255)
ctgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATg < 1:3579630/71‑1 (MQ=255)
tgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttgttg < 1:602510/49‑1 (MQ=255)
gaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGc > 1:3054729/1‑40 (MQ=255)
gaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATg > 1:1668584/1‑69 (MQ=255)
gaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATg > 1:3500197/1‑69 (MQ=255)
cGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCtttt < 1:3223245/71‑1 (MQ=255)
ttAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCtttt < 1:4180700/69‑1 (MQ=255)
ttAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCtttt > 1:2509442/1‑69 (MQ=255)
aaCCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATa > 1:4234835/1‑43 (MQ=255)
aaCCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATa > 1:1595324/1‑43 (MQ=255)
aaCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCa < 1:4607376/55‑1 (MQ=255)
aCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAgg < 1:4478488/70‑1 (MQ=255)
aCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAgg > 1:148214/1‑70 (MQ=255)
aCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGa < 1:3257122/71‑1 (MQ=255)
cATTGTGCCAGCCCAGACGTTAGCGCGGCCAttgttg > 1:3485328/1‑37 (MQ=255)
aTTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATa < 1:3807033/71‑1 (MQ=255)
gtgCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga > 1:1556226/1‑50 (MQ=255)
tgCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGt < 1:1006008/70‑1 (MQ=255)
ccAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGTGa < 1:217784/70‑1 (MQ=255)
|
ATAATTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGTGA > W3110S.gb/2291188‑2291327
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
