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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,818,451 |
T→C |
E162G (GAA→GGA) |
mltB ← |
lytic murein transglycosylase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,818,451 | 0 | T | C | 100.0%
| 54.9
/ NA
| 18 | E162G (GAA→GGA) | mltB | lytic murein transglycosylase B |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (5/13); total (5/13) |
ACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAG > NZ_CP009273/2818365‑2818537
|
aCTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCaa > 1:200205/1‑90 (MQ=255)
gcgcgGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCg > 1:159855/1‑90 (MQ=255)
gACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTcc < 1:496005/90‑1 (MQ=255)
aGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCcggc < 2:109995/90‑1 (MQ=255)
ttGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTa < 2:426169/90‑1 (MQ=255)
ttGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTa < 2:324634/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 2:59465/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 2:441879/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 1:442605/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 2:148444/90‑1 (MQ=255)
gAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCAcgcgc > 2:140595/1‑90 (MQ=255)
gAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCAcgcgc < 1:323403/90‑1 (MQ=255)
gTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGa > 1:294702/1‑90 (MQ=255)
cATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGc < 1:338156/90‑1 (MQ=255)
cATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGc < 2:83895/90‑1 (MQ=255)
cAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGa > 2:861/1‑90 (MQ=255)
gTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCAt < 2:317928/46‑1 (MQ=255)
gTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAg < 1:92099/90‑1 (MQ=255)
|
ACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAG > NZ_CP009273/2818365‑2818537
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ 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
CCAGAGAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAGAAAACCACAC > NZ_CP009273/2818355‑2818547
|
CCAGAGAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAA > SRR3722114.202157/1‑100 (MQ=60)
GAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCG > SRR3722114.161453/1‑100 (MQ=60)
GACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTC < SRR3722114.502213/100‑1 (MQ=60)
tctagtacggtctcgtgggctcggagatgtgtataagagacagCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACC < SRR3722114.481052/57‑1 (MQ=60)
TGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACC < SRR3722114.448082/100‑1 (MQ=60)
GAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGA > SRR3722114.297834/1‑100 (MQ=60)
GAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGC < SRR3722114.326942/100‑1 (MQ=60)
CATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATAC < SRR3722114.341966/100‑1 (MQ=60)
CCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCTTACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAG > SRR3722114.237857/1‑100 (MQ=60)
CCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACtgtctcttatacacatctccgagcccacgagac > SRR3722114.321359/1‑67 (MQ=60)
GTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAGAAAACCACAC < SRR3722114.93071/100‑1 (MQ=60)
|
CCAGAGAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAGAAAACCACAC > NZ_CP009273/2818355‑2818547
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
