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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
647,863 |
A→G |
8.4% |
M311T (ATG→ACG) |
citF ← |
citrate lyase, citrate‑ACP transferase (alpha) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 647,863 | 0 | A | G | 8.4%
| 194.0
/ 8.6
| 71 | M311T (ATG→ACG) | citF | citrate lyase, citrate‑ACP transferase (alpha) subunit |
| Reads supporting (aligned to +/- strand): ref base A (33/32); new base G (2/4); total (35/36) |
| Fisher's exact test for biased strand distribution p-value = 6.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCAGCATGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAG > W3110S.gb/647793‑647930
|
cgcAGCATGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCa < 1:3946051/71‑1 (MQ=255)
cgcAGCATGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCa < 1:1652496/71‑1 (MQ=255)
caTGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtcgtc < 1:3649155/71‑1 (MQ=255)
tGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgc < 1:891202/71‑1 (MQ=255)
tGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgc > 1:2347317/1‑71 (MQ=255)
gCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtc < 1:744589/64‑1 (MQ=255)
tCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTaa < 1:3403736/70‑1 (MQ=255)
aaaGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTaa < 1:1985416/68‑1 (MQ=255)
aaaGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATa < 1:3954781/70‑1 (MQ=255)
aaaGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATAc > 1:1636460/1‑71 (MQ=255)
aaaGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATAc < 1:533607/71‑1 (MQ=255)
aGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgc < 1:4298971/61‑1 (MQ=255)
ctctGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGcc < 1:2025050/71‑1 (MQ=255)
cacaTCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCaa < 1:2238542/68‑1 (MQ=255)
acaTCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCg > 1:400496/1‑63 (MQ=255)
acaTCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGc < 1:633915/71‑1 (MQ=255)
tCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCg > 1:717512/1‑69 (MQ=255)
tCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAAt < 1:135720/56‑1 (MQ=255)
ccAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAg > 1:3401269/1‑71 (MQ=255)
ccAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAg > 1:797009/1‑71 (MQ=255)
cagcagTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGaa > 1:73125/1‑69 (MQ=255)
cagcagTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGt < 1:1128217/71‑1 (MQ=255)
agcagTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGcc < 1:1426101/59‑1 (MQ=255)
cagTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAAt < 1:2843634/51‑1 (MQ=255)
agTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAg < 1:3897581/59‑1 (MQ=255)
tttGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtcgtc < 1:112205/40‑1 (MQ=255)
tttGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCgg < 1:3926353/44‑1 (MQ=255)
tttGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGgcgc < 1:4370977/71‑1 (MQ=255)
tttGAGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGgcgc > 1:1879312/1‑71 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtc > 1:104599/1‑35 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCgg > 1:776938/1‑42 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCaa > 1:1051816/1‑54 (MQ=255)
ggATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAat > 1:3627927/1‑70 (MQ=255)
gATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTaa < 1:174543/41‑1 (MQ=255)
aTCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCg > 1:2214548/1‑60 (MQ=255)
tCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCaa > 1:4394330/1‑48 (MQ=255)
tCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGaa > 1:91139/1‑55 (MQ=255)
tCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcg < 1:40304/71‑1 (MQ=255)
cAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCg < 1:2551821/52‑1 (MQ=255)
cAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGgcgc > 1:3708974/1‑62 (MQ=255)
cAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgc > 1:3287860/1‑71 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgc < 1:2923624/70‑1 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGt < 1:3621924/35‑1 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgcg > 1:2218218/1‑71 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgcg < 1:2888333/71‑1 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgc < 1:276234/70‑1 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgc < 1:4493736/70‑1 (MQ=255)
aCCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCa < 1:1431666/43‑1 (MQ=255)
aCCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCa < 1:1281382/43‑1 (MQ=255)
aCCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGc > 1:4160137/1‑71 (MQ=255)
aCCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGc > 1:4165694/1‑71 (MQ=255)
ccTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCt < 1:3146755/71‑1 (MQ=255)
ccTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGCGCGAAGTCGGCGCGAATATcgccgc > 1:553210/1‑70 (MQ=255)
cTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTa > 1:1172715/1‑71 (MQ=255)
cTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTa > 1:4197639/1‑71 (MQ=255)
cTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTa > 1:4558070/1‑71 (MQ=255)
ttttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcg > 1:240188/1‑63 (MQ=255)
ttttCGTGCAGGTCAACAATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGgcgc > 1:425744/1‑55 (MQ=255)
tttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAgg < 1:3897486/41‑1 (MQ=255)
tttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACg > 1:2506116/1‑70 (MQ=255)
tttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACg > 1:634324/1‑70 (MQ=255)
tttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACg > 1:1163493/1‑70 (MQ=255)
ttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGc < 1:3719397/70‑1 (MQ=255)
cGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGc > 1:682620/1‑63 (MQ=255)
cGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCAt < 1:1142035/70‑1 (MQ=255)
aGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTc > 1:4591857/1‑71 (MQ=255)
gTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCt < 1:1873568/70‑1 (MQ=255)
gTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCa > 1:4187581/1‑62 (MQ=255)
tCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTAc < 1:1181524/58‑1 (MQ=255)
aaCCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCgg < 1:2904085/52‑1 (MQ=255)
aaCCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTc > 1:81215/1‑69 (MQ=255)
ccATCGTCGCTGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAg > 1:1768004/1‑70 (MQ=255)
ccATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAg > 1:1469857/1‑70 (MQ=255)
|
CGCAGCATGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAG > W3110S.gb/647793‑647930
|
| 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
