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 I231 R1
|
218 |
12.8 |
703680 |
97.2% |
683976 |
86.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
601,986 |
A→G |
F285S (TTC→TCC) |
ybdK ← |
YbdK family carboxylate‑amine ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 601,986 | 0 | A | G | 100.0%
| 43.7
/ NA
| 14 | F285S (TTC→TCC) | ybdK | YbdK family carboxylate‑amine ligase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (9/5); total (9/5) |
TTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCC > NZ_CP009273/601918‑602066
|
ttAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATAcagca > 1:287914/1‑90 (MQ=255)
tcCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTg < 2:287914/90‑1 (MQ=255)
gtgCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGttt > 2:344931/1‑90 (MQ=255)
gATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACg > 2:87574/1‑90 (MQ=255)
cGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCCGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGc > 1:243232/1‑90 (MQ=255)
atgaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTcc < 1:306308/90‑1 (MQ=255)
tgaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCg < 1:344931/90‑1 (MQ=255)
gaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGt > 1:301337/1‑90 (MQ=255)
gaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGt > 2:226076/1‑90 (MQ=255)
cTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTa > 1:286056/1‑90 (MQ=255)
cAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAAcc < 2:151916/90‑1 (MQ=255)
aTAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGc > 1:106809/1‑90 (MQ=255)
gACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAg > 2:290379/1‑90 (MQ=255)
cAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGcc < 2:45487/90‑1 (MQ=255)
|
TTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCC > NZ_CP009273/601918‑602066
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCCTGAATTAATCCC > NZ_CP009273/601908‑602078
|
GTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCA > SRR3722116.292115/1‑100 (MQ=60)
GTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCCGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGC > SRR3722116.246605/1‑100 (MQ=60)
GATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGT > SRR3722116.305772/1‑100 (MQ=60)
GTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTA > SRR3722116.290224/1‑100 (MQ=60)
ATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACC < SRR3722116.310823/100‑1 (MQ=60)
TGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCA < SRR3722116.350071/100‑1 (MQ=60)
CTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGC > SRR3722116.108111/1‑100 (MQ=60)
GGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCCTGAATTAATCCC > SRR3722116.350873/1‑100 (MQ=60)
|
GTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCCTGAATTAATCCC > NZ_CP009273/601908‑602078
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
