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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,291,258 |
C→T |
9.2% |
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 | 9.2%
| 159.1
/ 5.5
| 54 | G326D (GGC→GAC) | yejO | predicted autotransporter outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (23/26); new base T (2/3); total (25/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
TAATTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGT > W3110S.gb/2291189‑2291325
|
tAATTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGc > 1:725707/1‑70 (MQ=255)
tttGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCa < 1:648162/70‑1 (MQ=255)
cGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGt < 1:2219975/71‑1 (MQ=255)
tCATGACCTCAAGGATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAgcg > 1:41466/1‑71 (MQ=255)
tCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGcc > 1:1805831/1‑59 (MQ=255)
tCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGc > 1:2432877/1‑58 (MQ=255)
tGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGc > 1:2168924/1‑51 (MQ=255)
aCCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGc > 1:2032711/1‑70 (MQ=255)
aCCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGc < 1:2311375/70‑1 (MQ=255)
cTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAt < 1:2718050/71‑1 (MQ=255)
cTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAt < 1:442024/71‑1 (MQ=255)
cAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGcc > 1:1612794/1‑50 (MQ=255)
cAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGcc > 1:313546/1‑50 (MQ=255)
cAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttg > 1:2561256/1‑71 (MQ=255)
cAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAttg > 1:951454/1‑71 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAg > 1:412094/1‑47 (MQ=255)
aaGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAtt < 1:982168/69‑1 (MQ=255)
tGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAg < 1:2222739/54‑1 (MQ=255)
gCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGa > 1:2115879/1‑47 (MQ=255)
ccATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGt < 1:41568/49‑1 (MQ=255)
ccATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGt < 1:1799191/49‑1 (MQ=255)
catcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCa < 1:1092334/43‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGtt < 1:2114305/47‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGtt < 1:1715278/47‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAAcc < 1:2520321/69‑1 (MQ=255)
tcatTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCat < 1:2046574/71‑1 (MQ=255)
tcatTACCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCa > 1:2027812/1‑70 (MQ=255)
atTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCatat > 1:940439/1‑71 (MQ=255)
atTCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCatat > 1:273648/1‑71 (MQ=255)
atTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGa > 1:870360/1‑41 (MQ=255)
atTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGa > 1:2683160/1‑41 (MQ=255)
ttCCCTCTGACTGAAACGTTAACCATTGTGTCAGCCCAGACGTTAGCGCGGCCAttg < 1:1473950/57‑1 (MQ=255)
ttCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAtt < 1:681638/56‑1 (MQ=255)
ttCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCAtt < 1:1232020/56‑1 (MQ=255)
cccTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATAttt > 1:464107/1‑70 (MQ=255)
actgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:358649/68‑1 (MQ=255)
actgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:1261987/68‑1 (MQ=255)
actgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga < 1:1610278/68‑1 (MQ=255)
actgaAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGAt > 1:1155654/1‑71 (MQ=255)
cGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCtttt > 1:358324/1‑71 (MQ=255)
gTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTg < 1:367615/71‑1 (MQ=255)
gTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTg < 1:612519/71‑1 (MQ=255)
ttAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATa > 1:390301/1‑45 (MQ=255)
ttAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATa > 1:2128822/1‑45 (MQ=255)
ttAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCa < 1:838718/57‑1 (MQ=255)
aaCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga > 1:606246/1‑57 (MQ=255)
aaCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga > 1:1243433/1‑57 (MQ=255)
aaCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCaga > 1:412515/1‑57 (MQ=255)
aCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAgg < 1:1595116/70‑1 (MQ=255)
aCCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAgg < 1:224436/70‑1 (MQ=255)
ccATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGaa < 1:2131132/71‑1 (MQ=255)
aTTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATa < 1:1539336/71‑1 (MQ=255)
ttGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCa < 1:1047314/42‑1 (MQ=255)
gtgCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGt > 1:218795/1‑71 (MQ=255)
gtgCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATATTCAGAGATGGCATTTGAGGAATACg > 1:1070686/1‑70 (MQ=255)
tgCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGt < 1:839154/70‑1 (MQ=255)
|
TAATTTATTTGCGGCTTCATGACCTCAAGAATGCCATCATTCCCTCTGACTGAAACGTTAACCATTGTGCCAGCCCAGACGTTAGCGCGGCCATTGTTGATAACCATATTTTCAGAGATGGCTTTTGAGGAATACGT > W3110S.gb/2291189‑2291325
|
| 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
