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 I205 R1
|
220 |
17.5 |
961422 |
97.1% |
933540 |
86.5 |
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%
| 100.9
/ NA
| 30 | E531G (GAA→GGA) | ygfK | putative selenate reductase subunit YgfK |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/9); total (21/9) |
CAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATTGGTGCAG > NZ_CP009273/3010934‑3011093
|
cAGTCCAAATACACCTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGAt < 1:73702/90‑1 (MQ=255)
gTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGa > 1:18298/1‑90 (MQ=255)
aaTACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAAtata > 2:70363/1‑90 (MQ=255)
aaTACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAAtata > 2:462839/1‑90 (MQ=255)
aaCTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCaa > 1:61622/1‑90 (MQ=255)
tGTCCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGc < 1:98819/90‑1 (MQ=255)
tGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGc > 2:463491/1‑90 (MQ=255)
gcaCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCt < 2:261720/88‑1 (MQ=255)
gTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCt > 2:229857/1‑90 (MQ=255)
gTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCt > 2:153523/1‑90 (MQ=255)
aCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTgg > 1:226140/1‑90 (MQ=255)
cGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGcac > 1:146051/1‑90 (MQ=255)
ccTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACaa > 2:459800/1‑90 (MQ=255)
tACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGcc < 2:335848/90‑1 (MQ=255)
aCGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCg > 2:224911/1‑90 (MQ=255)
cGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCgg > 1:90209/1‑90 (MQ=255)
aGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGGTGGGAAAAGGTTGGGATGAATATAAGCa < 2:104498/65‑1 (MQ=255)
aGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCa > 1:104498/1‑65 (MQ=255)
aGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCt > 2:318170/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 1:68046/1‑90 (MQ=255)
gTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTg > 1:444616/1‑90 (MQ=255)
gcgcTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGt > 2:429250/1‑90 (MQ=255)
cTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCa < 2:61622/90‑1 (MQ=255)
tGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCAc < 2:247347/90‑1 (MQ=255)
tatCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCa > 2:308163/1‑90 (MQ=255)
tCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATc > 2:344678/1‑90 (MQ=255)
gAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGtt > 1:81599/1‑90 (MQ=255)
cTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGcc > 1:284249/1‑90 (MQ=255)
aaaGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGAtt < 2:18298/90‑1 (MQ=255)
cgcTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATTGGTGCAg < 2:465514/90‑1 (MQ=255)
|
CAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATTGGTGCAG > NZ_CP009273/3010934‑3011093
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ 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
GCGATCACCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATTGGTGCAGGTCCGGCGGGTCTGGC > NZ_CP009273/3010926‑3011109
|
GCGATCACCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGA > SRR3722087.18440/1‑100 (MQ=60)
cagcccaaataaacctgtcCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGC < SRR3722087.422665/81‑1 (MQ=60)
CAGTCCAAATACACCTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGC < SRR3722087.74379/100‑1 (MQ=60)
GTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAA > SRR3722087.62154/1‑100 (MQ=60)
ATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGG > SRR3722087.228193/1‑100 (MQ=60)
CAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCAC > SRR3722087.147396/1‑100 (MQ=60)
TGTCCCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAAC < SRR3722087.99764/100‑1 (MQ=60)
GCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGG > SRR3722087.91064/1‑100 (MQ=60)
GGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACctgtctcttatacac > SRR3722087.105501/1‑85 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTG > SRR3722087.449813/1‑100 (MQ=60)
GATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTG > SRR3722087.68664/1‑100 (MQ=60)
GAATATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTT > SRR3722087.82359/1‑100 (MQ=60)
TATCCGCGAACTGAAAAAAGTCGCGCTGGGAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCC > SRR3722087.287096/1‑100 (MQ=60)
GAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATTGGTGCAGGTCCGGCGGGTCTGGC < SRR3722087.71001/100‑1 (MQ=60)
|
GCGATCACCAGTGCCAATACAACTGTACCCGCCTGGATTACGACAGTGCGCTGAATATCCGCGAACTGAAAAAAGTCGCGCTGGAAAAAGGTTGGGATGAATATAAGCAACGCTGGCACAAACCAGCCGGTTCTGGTTCACGCCATCCGGTTGCCGTGATTGGTGCAGGTCCGGCGGGTCTGGC > NZ_CP009273/3010926‑3011109
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
