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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
444,519 |
G→A |
R527C (CGT→TGT) |
cyoB ← |
cytochrome o ubiquinol oxidase subunit I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 444,519 | 0 | G | A | 100.0%
| 126.8
/ NA
| 34 | R527C (CGT→TGT) | cyoB | cytochrome o ubiquinol oxidase subunit I |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/13); total (21/13) |
CAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTG > NZ_CP009273/444441‑444605
|
cAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTggtcgc < 1:104970/90‑1 (MQ=255)
ggAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGaa > 1:491423/1‑90 (MQ=255)
ggAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGaa > 1:679628/1‑90 (MQ=255)
ggAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCT‑GTCGCGGTCGCGAATAGaaa > 2:636234/1‑90 (MQ=255)
gCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGt < 2:491423/90‑1 (MQ=255)
ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTAc < 1:49760/90‑1 (MQ=255)
ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTAc > 2:49760/1‑90 (MQ=255)
ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGGCGCCAGTCAGGGCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTAc > 2:150477/1‑90 (MQ=255)
gggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACa < 2:49395/90‑1 (MQ=255)
tGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAAc > 2:860061/1‑90 (MQ=255)
tGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAAc > 2:504148/1‑90 (MQ=255)
tGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAAc > 2:354926/1‑90 (MQ=255)
tGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAAc > 1:821850/1‑90 (MQ=255)
cACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAgg < 2:664770/90‑1 (MQ=255)
cACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAgg < 2:558643/90‑1 (MQ=255)
aCTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGc > 1:445394/1‑90 (MQ=255)
cTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa > 2:745816/1‑90 (MQ=255)
cTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa < 1:582980/90‑1 (MQ=255)
cTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa < 1:701003/90‑1 (MQ=255)
cGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAAt > 1:254907/1‑90 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTTCATCTGAATAACGAGGCAGAGAATAccc > 2:23683/1‑90 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa > 1:837476/1‑80 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa < 2:837476/80‑1 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATAccc > 2:6758/1‑90 (MQ=255)
cccACGGGTCGCCCGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCaa > 2:108236/1‑90 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATc < 1:814252/90‑1 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATc < 2:750586/90‑1 (MQ=255)
cGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAg > 1:899117/1‑90 (MQ=255)
cGGGTCGCCAGTCAGGTCACAGTTCT‑GTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGt < 1:636234/90‑1 (MQ=255)
gggTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGt > 1:730205/1‑90 (MQ=255)
gggTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGt < 1:860061/90‑1 (MQ=255)
tCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACt > 2:204913/1‑90 (MQ=255)
cGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTg > 2:203233/1‑90 (MQ=255)
cGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTg > 1:276039/1‑90 (MQ=255)
cacaGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCgctggctg < 2:821850/90‑1 (MQ=255)
|
CAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTG > NZ_CP009273/444441‑444605
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ 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
TGAACGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGC > NZ_CP009273/444422‑444599
|
TGAACGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGT < SRR3722072.113691/100‑1 (MQ=60)
GTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGG < SRR3722072.336275/100‑1 (MQ=60)
GCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTC < SRR3722072.274191/100‑1 (MQ=60)
CAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAAT < SRR3722072.106907/100‑1 (MQ=60)
GTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAA > SRR3722072.500301/1‑100 (MQ=60)
GTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAA > SRR3722072.691787/1‑100 (MQ=60)
GGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAA < SRR3722072.50672/100‑1 (MQ=60)
GGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAAC > SRR3722072.836150/1‑100 (MQ=60)
GAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGC > SRR3722072.453555/1‑100 (MQ=60)
CCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAAT > SRR3722072.259229/1‑100 (MQ=60)
CTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCC < SRR3722072.593389/100‑1 (MQ=60)
CTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCC > SRR3722072.851988/1‑100 (MQ=60)
CTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCC < SRR3722072.713521/100‑1 (MQ=60)
GGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAG > SRR3722072.914586/1‑100 (MQ=60)
GCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGT > SRR3722072.743157/1‑100 (MQ=60)
CCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTG > SRR3722072.280761/1‑100 (MQ=60)
CACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCAC < SRR3722072.828433/100‑1 (MQ=60)
CGGGTCGCCAGTCAGGTCACAGTTCT‑GTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGC < SRR3722072.647582/100‑1 (MQ=60)
GGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGC < SRR3722072.874906/100‑1 (MQ=60)
|
TGAACGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGC > NZ_CP009273/444422‑444599
|
| 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: ‑ |
