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 I227 R1
|
223 |
21.3 |
1167702 |
97.0% |
1132670 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,011,010 |
A→G |
E531G (GAA→GGA) |
ygfK → |
putative selenate reductase subunit YgfK |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,011,010 | 0 | A | G | 100.0%
| 102.9
/ NA
| 32 | E531G (GAA→GGA) | ygfK | putative selenate reductase subunit YgfK |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/11); total (21/11) |
TTTGCGATCACCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATT > NZ_CP009273/3010923‑3011086
|
tttGCAACCCCCAGTCCAAAAACAACTGTCCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGgaa < 2:424839/90‑1 (MQ=255)
cACCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTgg > 2:418493/1‑90 (MQ=255)
ccAGTCCAAATACACCTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGa < 2:581036/90‑1 (MQ=255)
cAGTGCAAATACAACTGTCCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGAt < 2:53272/90‑1 (MQ=255)
gTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGa > 2:144264/1‑90 (MQ=255)
aaCTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCaa > 1:173516/1‑90 (MQ=255)
gTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCt > 2:189203/1‑90 (MQ=255)
aCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTgg > 2:539374/1‑90 (MQ=255)
aCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTgg > 2:399950/1‑90 (MQ=255)
aCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTgg > 2:290870/1‑90 (MQ=255)
cGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGcac > 1:517937/1‑90 (MQ=255)
aCGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCg < 2:79125/90‑1 (MQ=255)
aCGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCg > 2:286747/1‑90 (MQ=255)
cAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTc < 2:390258/90‑1 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATg > 1:260802/1‑54 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATg < 2:260802/54‑1 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 2:14933/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 2:460474/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 1:307414/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 2:314966/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 1:293453/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 1:294115/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGATGGCACAAACCAGCCGGTTCTg > 1:287663/1‑90 (MQ=255)
tatCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGa < 1:16170/42‑1 (MQ=255)
tatCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGa > 2:16170/1‑42 (MQ=255)
atCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCAt < 2:315928/90‑1 (MQ=255)
gcgAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCgg > 2:241423/1‑90 (MQ=255)
cgAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGt < 1:387139/90‑1 (MQ=255)
cgAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGt < 1:241423/90‑1 (MQ=255)
gAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGtt > 1:561836/1‑90 (MQ=255)
gAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGtt > 1:23940/1‑90 (MQ=255)
aaaaGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGAt < 2:561836/90‑1 (MQ=255)
aaaGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGAtt < 2:319793/90‑1 (MQ=255)
|
TTTGCGATCACCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATT > NZ_CP009273/3010923‑3011086
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
CCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATT > NZ_CP009273/3010933‑3011086
|
gacattcgtcggcagcgtcagatgtgtataagagacagGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAG < SRR3722111.16369/62‑1 (MQ=60)
GTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAA > SRR3722111.175678/1‑100 (MQ=60)
CAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCAC > SRR3722111.526023/1‑100 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCActgtctcttatacacatctgacgctg > SRR3722111.263870/1‑74 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTG > SRR3722111.297212/1‑100 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTG > SRR3722111.297882/1‑100 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTG > SRR3722111.311419/1‑100 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGATGGCACAAACCAGCCGGTTCTG > SRR3722111.291323/1‑100 (MQ=60)
GAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTT > SRR3722111.24234/1‑100 (MQ=60)
GAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTT > SRR3722111.570666/1‑100 (MQ=60)
CGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATT < SRR3722111.244295/100‑1 (MQ=60)
CGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATT < SRR3722111.392725/100‑1 (MQ=60)
|
CCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATT > NZ_CP009273/3010933‑3011086
|
| 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: ‑ |
