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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
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%
| 107.6
/ NA
| 32 | F285S (TTC→TCC) | ybdK | YbdK family carboxylate‑amine ligase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (23/9); total (23/9) |
CAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCCTGAAT > NZ_CP009273/601904‑602071
|
cAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGtt < 2:633456/90‑1 (MQ=255)
cAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGtt < 1:289075/90‑1 (MQ=255)
ggTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGaa < 1:860861/90‑1 (MQ=255)
tATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAAtt < 1:69808/90‑1 (MQ=255)
aTCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAAttt > 1:190341/1‑90 (MQ=255)
cTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTtat > 2:655955/1‑90 (MQ=255)
cGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATAcag < 2:1041076/90‑1 (MQ=255)
gTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTAAAcagc > 2:675296/1‑90 (MQ=255)
ttAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATGGCGACAGGCCTGGGAACGGTTGAATGTATAcagca > 1:1100576/1‑90 (MQ=255)
ttAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATAcagca > 1:956767/1‑90 (MQ=255)
gTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAAt > 1:951978/1‑90 (MQ=255)
tcCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTg > 1:694358/1‑90 (MQ=255)
tcCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTg > 1:1103844/1‑90 (MQ=255)
gtgtGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGt > 2:875119/1‑90 (MQ=255)
gtgtGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGt > 1:25715/1‑90 (MQ=255)
gtgCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGttt > 1:836757/1‑90 (MQ=255)
gtgCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAAGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGttt > 1:704537/1‑90 (MQ=255)
ggATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAAc < 2:743871/90‑1 (MQ=255)
gATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACg > 2:731189/1‑90 (MQ=255)
gTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGt > 1:1051591/1‑90 (MQ=255)
gatgaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTc < 2:67500/90‑1 (MQ=255)
gaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGt > 2:367022/1‑90 (MQ=255)
gaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGt < 1:227622/90‑1 (MQ=255)
gaCGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGt > 1:834638/1‑90 (MQ=255)
cGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCa > 2:828317/1‑90 (MQ=255)
cTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTa > 2:1182808/1‑90 (MQ=255)
aTAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGc > 1:670889/1‑90 (MQ=255)
aTAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGc > 2:737035/1‑90 (MQ=255)
tAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCg > 1:981029/1‑90 (MQ=255)
tAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCg > 1:672561/1‑90 (MQ=255)
cAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGcc > 1:259750/1‑90 (MQ=255)
cTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCCTGAAt < 2:701638/90‑1 (MQ=255)
|
CAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCCTGAAT > NZ_CP009273/601904‑602071
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
ATTTTTTCCAGCAATCGCAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCC > NZ_CP009273/601887‑602066
|
ATTTTTTCCAGCAATCGCAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGG > SRR3722089.593175/1‑100 (MQ=60)
ATTTTTTCCAGCAATCGCAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGG > SRR3722089.46270/1‑100 (MQ=60)
TTTTTTCCAGCAATCGCAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGA < SRR3722089.162729/100‑1 (MQ=60)
CAATCGCAAGGTATCTTCCGTTAGCGGTTGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAAT < SRR3722089.1097617/100‑1 (MQ=60)
ATCGCAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTT > SRR3722089.192729/1‑100 (MQ=60)
CAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATAC < SRR3722089.292772/100‑1 (MQ=60)
GGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGC < SRR3722089.873170/100‑1 (MQ=60)
GTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATGGCGACAGGCCTGGGAACGGTTGAATGTATACAGCA > SRR3722089.1117208/1‑100 (MQ=60)
GTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCA > SRR3722089.970840/1‑100 (MQ=60)
TATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAG < SRR3722089.70656/100‑1 (MQ=60)
TCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAAT > SRR3722089.965958/1‑100 (MQ=60)
cggcgaccaccgagatctacactaagatggtcgtcggcagcgtcagatgtgtataagagacagGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCT < SRR3722089.878587/37‑1 (MQ=60)
GTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTG > SRR3722089.703406/1‑100 (MQ=60)
GTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTG > SRR3722089.1120536/1‑100 (MQ=60)
ACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGT > SRR3722089.26026/1‑100 (MQ=60)
GATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTT > SRR3722089.848594/1‑100 (MQ=60)
GATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAAGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTT > SRR3722089.713716/1‑100 (MQ=60)
GTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGT > SRR3722089.1067355/1‑100 (MQ=60)
GATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGT > SRR3722089.846436/1‑100 (MQ=60)
GACGCCTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAG < SRR3722089.230512/100‑1 (MQ=60)
CTTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGC > SRR3722089.679577/1‑100 (MQ=60)
TTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCG > SRR3722089.681269/1‑100 (MQ=60)
TTCAAGCCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCG > SRR3722089.995554/1‑100 (MQ=60)
CCCATAGCGACAGGCCTGGGAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCC > SRR3722089.263082/1‑100 (MQ=60)
|
ATTTTTTCCAGCAATCGCAAGGTATCTTCCGTTAGCGGTCGACGATCTCCAGTGTGCGGATCGGTGATGACGCCTTCAAGCCCATAGCGACAGGCCTGGAAACGGTTGAATTTATACAGCAGGTAATCTTTTTCCTGATGTTTAAACGGGCGTTCCGTCAGTAACCAGTGGGCGGTAGCC > NZ_CP009273/601887‑602066
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
