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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
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%
| 116.0
/ NA
| 32 | R527C (CGT→TGT) | cyoB | cytochrome o ubiquinol oxidase subunit I |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/20); total (12/20) |
TACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCT > NZ_CP009273/444436‑444600
|
tACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGGCGCCAGTCAGGTCACAGTTCTg > 1:84624/1‑90 (MQ=255)
cGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGa < 2:584046/90‑1 (MQ=255)
cGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGa < 1:688593/90‑1 (MQ=255)
ggAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACTGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGaa > 2:36342/1‑90 (MQ=255)
ggAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGaa > 2:576595/1‑90 (MQ=255)
ggAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGaa > 2:119439/1‑90 (MQ=255)
gCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGt < 1:636983/90‑1 (MQ=255)
ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTAc < 1:119439/90‑1 (MQ=255)
ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTAc > 2:441790/1‑90 (MQ=255)
ggggAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTAc < 1:668302/90‑1 (MQ=255)
gAAGAGGTTGTCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATc < 1:314834/90‑1 (MQ=255)
aaGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCCCGGTCGCGAATAGAAACGTACATCt < 1:12751/90‑1 (MQ=255)
gCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACg < 2:72060/90‑1 (MQ=255)
cTCCAGGGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa > 2:764264/1‑90 (MQ=255)
cTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTTGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa < 2:240786/90‑1 (MQ=255)
cTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa < 1:272768/90‑1 (MQ=255)
cTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCCCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCa < 1:543302/90‑1 (MQ=255)
gTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATa > 2:181790/1‑90 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATAccc > 2:233956/1‑90 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATAccc < 1:589127/90‑1 (MQ=255)
cGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATAccc > 2:394342/1‑90 (MQ=255)
cACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAgcg < 1:376872/90‑1 (MQ=255)
cACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAgcg < 2:56756/90‑1 (MQ=255)
cACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAgcg < 1:284518/90‑1 (MQ=255)
aCCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAgcgc > 1:301070/1‑90 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACTCAGCGCAATc < 2:402923/90‑1 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATc < 1:364302/90‑1 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATc < 1:774900/90‑1 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATc < 1:189721/90‑1 (MQ=255)
cACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCCCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATc < 1:615644/90‑1 (MQ=255)
ggTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTa > 1:608251/1‑90 (MQ=255)
cAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCgct > 1:619162/1‑90 (MQ=255)
|
TACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCT > NZ_CP009273/444436‑444600
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ 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
AACGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTGCAATCAT > NZ_CP009273/444424‑444612
|
AACGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTC < SRR3722073.541825/100‑1 (MQ=60)
CGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGGCGCCAGTCAGGTCACAGTTCTG > SRR3722073.86528/1‑100 (MQ=60)
CGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATC < SRR3722073.702624/100‑1 (MQ=60)
GCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAAT < SRR3722073.650133/100‑1 (MQ=60)
GGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAA < SRR3722073.121981/100‑1 (MQ=60)
GGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAA < SRR3722073.681985/100‑1 (MQ=60)
GAAGAGGTTGTCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGA < SRR3722073.321504/100‑1 (MQ=60)
AAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCCCGGTCGCGAATAGAAACGTACATCTGAATAACGAG < SRR3722073.13075/100‑1 (MQ=60)
CTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCC < SRR3722073.278544/100‑1 (MQ=60)
CTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCCCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCC < SRR3722073.554648/100‑1 (MQ=60)
GCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGC > SRR3722073.307436/1‑100 (MQ=60)
CGGCCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCA < SRR3722073.601431/100‑1 (MQ=60)
CCACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTA > SRR3722073.620929/1‑100 (MQ=60)
CACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAC < SRR3722073.384893/100‑1 (MQ=60)
CACCCCACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTAC < SRR3722073.290544/100‑1 (MQ=60)
CACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCAC < SRR3722073.193474/100‑1 (MQ=60)
CACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCAC < SRR3722073.372034/100‑1 (MQ=60)
CACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCAC < SRR3722073.790509/100‑1 (MQ=60)
CACGGGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCCCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCAC < SRR3722073.628452/100‑1 (MQ=60)
GGTCGCCAGTCAGGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCT > SRR3722073.632030/1‑100 (MQ=60)
GGTCACAGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTGCAATCAT > SRR3722073.232001/1‑100 (MQ=60)
|
AACGTGCGGCACTACGGCAAAGTTATAGAACGGAGGCGGGGAAGAGGTTGCCCACTCCAGCGTACGGCCACCCCACGGGTCGCCAGTCAGGTCACGGTTCTGGTCGCGGTCGCGAATAGAAACGTACATCTGAATAACGAGGCAGAGAATACCCAGCGCAATCAGTACTGCACCGCTGGCTGCAATCAT > NZ_CP009273/444424‑444612
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
