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 I229 R1
|
214 |
17.4 |
943020 |
97.5% |
919444 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,266,497 |
A→G |
K219E (AAA→GAA) |
yejA → |
extracellular solute‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,266,497 | 0 | A | G | 100.0%
| 30.7
/ NA
| 11 | K219E (AAA→GAA) | yejA | extracellular solute‑binding protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (5/6); total (5/6) |
GAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGAAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCT > NZ_CP009273/2266424‑2266572
|
gAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAatat < 1:42270/90‑1 (MQ=255)
gAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAatat < 2:279154/90‑1 (MQ=255)
gAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTACTGGGAAATGGGGCAAAatat < 2:278626/90‑1 (MQ=255)
aGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGtgtg > 1:370245/1‑90 (MQ=255)
gCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGa < 1:297839/90‑1 (MQ=255)
ccGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAAc > 1:118859/1‑90 (MQ=255)
ccGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAAc > 1:311633/1‑90 (MQ=255)
gCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACtt < 1:109301/90‑1 (MQ=255)
aGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTa < 2:43756/90‑1 (MQ=255)
gcgTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCt > 2:175430/1‑90 (MQ=255)
gcgTTACGTCCTGGGAAATGGGGCAAAATACTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCt > 1:217381/1‑90 (MQ=255)
|
GAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGAAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCT > NZ_CP009273/2266424‑2266572
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TGCCGGTATTTCCAGAAAAGTACTGGAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGAAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCTGGAATTTCGACACCATT > NZ_CP009273/2266399‑2266589
|
TGCCGGTATTTCCAGAAAAGTACTGGAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGA < SRR3722113.324387/100‑1 (MQ=60)
TGCCGGTATTCCCAGAAAAGTACTGGAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGA < SRR3722113.138648/100‑1 (MQ=60)
GAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCC < SRR3722113.42624/100‑1 (MQ=60)
TCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTG > SRR3722113.374085/1‑100 (MQ=60)
GCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTG < SRR3722113.300648/100‑1 (MQ=60)
CGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAAC > SRR3722113.119879/1‑100 (MQ=60)
CGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAAC > SRR3722113.314657/1‑100 (MQ=60)
GCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAAC < SRR3722113.110260/100‑1 (MQ=60)
GGTCCGTACCGCGTTACGTCCTGGGAAATGGGGCAAAATACTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCT > SRR3722113.219110/1‑100 (MQ=60)
GTCCTGGGAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCTGGAATTTCGACACCATT > SRR3722113.368354/1‑100 (MQ=60)
|
TGCCGGTATTTCCAGAAAAGTACTGGAAGGATCACAAACTTAGCGACCCGCTCGCCACGCCTCCGCTTGCCAGTGGTCCGTACCGCGTTACGTCCTGGAAAATGGGGCAAAATATTGTCTATTCCCGTGTGAAAGATTACTGGGCAGCAAACTTACCGGTAAACCGTGGACGCTGGAATTTCGACACCATT > NZ_CP009273/2266399‑2266589
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
