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 |
|
A13 F1 I2 R1
|
762 |
35.5 |
1545288 |
95.5% |
1475750 |
117.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,799,390 |
(T)8→7 |
coding (807/852 nt) |
waaZ ← |
lipopolysaccharide KdoIII transferase, lipopolysaccharide core biosynthesis protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,799,383 | 0 | T | . | 100.0%
| 148.9
/ NA
| 36 | coding (814/852 nt) | waaZ | lipopolysaccharide KdoIII transferase, lipopolysaccharide core biosynthesis protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (16/20); total (16/20) |
AAAGGAAATTAATCTTGATTTTGTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCATTTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGATAAATTATAAATATTAATATCTTTTACATTATCATGC > NC_000913/3799246‑3799513
|
aaagGAAATTAATCTTGATTTTGTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCATATTATTTTAGTTTCAGGATGATTAATAAGCATAAGAATCGGTTGAAGTTCTATATTGCAtt > 1:190381/1‑139 (MQ=255)
gTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGa < 2:204645/139‑1 (MQ=255)
gTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGa < 1:71529/139‑1 (MQ=255)
aaTCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCa > 2:159288/1‑139 (MQ=255)
aTTTTTATACCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACa < 1:302690/139‑1 (MQ=255)
tttATACCATATTATTTTAGTTTCAGGATGAGTAATAAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCg < 2:190381/139‑1 (MQ=255)
tataCCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa > 2:750137/1‑124 (MQ=255)
tataCCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa < 1:750137/124‑1 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTg > 1:552789/1‑97 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa > 2:163154/1‑117 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa < 1:163154/117‑1 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACa > 2:418139/1‑127 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACa < 1:418139/127‑1 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATa > 2:331785/1‑139 (MQ=255)
tattatTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATa > 1:609056/1‑139 (MQ=255)
tattatTTTAGTTTCAGGATCATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTg < 2:552789/97‑1 (MQ=255)
attattTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAg < 1:159288/139‑1 (MQ=255)
tattTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCt < 1:331785/139‑1 (MQ=255)
gTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGa < 1:477542/74‑1 (MQ=255)
gTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGa > 2:477542/1‑74 (MQ=255)
tCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTg > 1:225903/1‑139 (MQ=255)
aGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGa < 2:154991/69‑1 (MQ=255)
aGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGa > 1:154991/1‑69 (MQ=255)
taattaGCATAAGAATTGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCAGTATCATCTGATAAATcata < 1:523936/139‑1 (MQ=255)
taattaGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGATAAATtata < 1:402317/139‑1 (MQ=255)
taGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTg < 1:269208/70‑1 (MQ=255)
taGCATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTg > 2:269208/1‑70 (MQ=255)
cATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa < 1:704465/87‑1 (MQ=255)
cATAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa > 2:704465/1‑87 (MQ=255)
tAAGAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGATAAATTATAAATATTAat < 2:118889/139‑1 (MQ=255)
gAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGaaa < 1:12510/102‑1 (MQ=255)
gAATCGGTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGaaa > 2:12510/1‑102 (MQ=255)
ggTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGAt > 2:34887/1‑114 (MQ=255)
ggTTGAAGTTCTATATTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGAt < 1:34887/114‑1 (MQ=255)
tataTTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTACTAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGATAAATTATAAATATTAATATCTTTTACATTATAATGc > 2:692861/1‑139 (MQ=255)
tataTTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa > 2:479912/1‑66 (MQ=255)
tataTTGCA‑TTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATaaa < 1:479912/66‑1 (MQ=255)
|
AAAGGAAATTAATCTTGATTTTGTTTATATAAAATCTTTTCTTTTTGTGAAAAGTTCCTAAGCGCATTTTTATACCATATTATTTTAGTTTCAGGATGATTAATTAGCATAAGAATCGGTTGAAGTTCTATATTGCATTTTTTTTCTTGTCATATCTTTTGATTCTTCTGCACTGATGTCTTGAAGTTTAATAAATGGAATTACATCGTAAGAAATAGCTGTATCATCTGATAAATTATAAATATTAATATCTTTTACATTATCATGC > NC_000913/3799246‑3799513
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
