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 F2 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,131,004 |
A→G |
intergenic (‑280/‑379) |
wza ← / → yegH |
polysaccharide export protein Wza/TerC family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,131,004 | 0 | A | G | 100.0%
| 48.9
/ NA
| 16 | intergenic (‑280/‑379) | wza/yegH | polysaccharide export protein Wza/TerC family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/10); total (6/10) |
TGGCTTTTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAG > NZ_CP009273/2130917‑2131073
|
tGGCTTTTTAGCTACCAATACACTGGTTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGgaa > 2:507279/1‑90 (MQ=255)
aGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTcc < 1:270405/90‑1 (MQ=255)
aGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTcc < 2:584091/90‑1 (MQ=255)
tACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGaa > 2:609207/1‑90 (MQ=255)
cAATACACTGATTTAGTTTAATTTTTCACAGCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAatat < 1:490921/90‑1 (MQ=255)
cAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAatat < 1:609207/90‑1 (MQ=255)
cacTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGt < 1:304823/90‑1 (MQ=255)
cTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGa > 1:76190/1‑90 (MQ=255)
gTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTcc < 2:20593/69‑1 (MQ=255)
gTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTcc > 1:20593/1‑69 (MQ=255)
aaTTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAAt > 2:461662/1‑90 (MQ=255)
tttttCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTg < 1:507279/90‑1 (MQ=255)
gCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATg > 2:258505/1‑90 (MQ=255)
cGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCagga < 2:396337/90‑1 (MQ=255)
tgatgaGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAggagga < 2:57075/90‑1 (MQ=255)
atgaGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAg > 2:101046/1‑90 (MQ=255)
atgaGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAg < 2:76190/90‑1 (MQ=255)
|
TGGCTTTTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAG > NZ_CP009273/2130917‑2131073
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCT > NZ_CP009273/2130926‑2131052
|
AGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGG < SRR3722088.273017/100‑1 (MQ=60)
TACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGA > SRR3722088.76964/1‑100 (MQ=60)
CAATACACTGATTTAGTTTAATTTTTCACAGCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACAT < SRR3722088.496779/100‑1 (MQ=60)
CAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACAT < SRR3722088.616711/100‑1 (MQ=60)
CACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGctgtctcttat > SRR3722088.20809/1‑89 (MQ=60)
CACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGG < SRR3722088.307843/100‑1 (MQ=60)
TTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCT < SRR3722088.513389/100‑1 (MQ=60)
|
AGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCT > NZ_CP009273/2130926‑2131052
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
