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 I208 R1
|
222 |
13.1 |
731276 |
96.6% |
706412 |
85.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,980,420 |
A→G |
G5G (GGA→GGG) |
ftnB → |
non‑heme ferritin‑like protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,980,420 | 0 | A | G | 100.0%
| 62.5
/ NA
| 18 | G5G (GGA→GGG) | ftnB | non‑heme ferritin‑like protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (12/6); total (12/6) |
GCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCT > NZ_CP009273/1980338‑1980501
|
gCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTtc > 1:362798/1‑90 (MQ=255)
cAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCaaa > 2:240476/1‑90 (MQ=255)
ggTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACtctc > 1:123410/1‑90 (MQ=255)
gATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAAc > 2:42158/1‑90 (MQ=255)
aTCTTGCACCTCTCCACTTCTGGATATAAGCATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGa > 1:50723/1‑90 (MQ=255)
gCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGtttt > 1:74128/1‑90 (MQ=255)
ccTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACg < 1:186309/90‑1 (MQ=255)
tctcCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCa > 1:269508/1‑90 (MQ=255)
tcCACTTCTGGATATAAGCATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATc < 2:50723/90‑1 (MQ=255)
ccACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATcc < 1:114404/90‑1 (MQ=255)
ttCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAAtc < 2:123410/90‑1 (MQ=255)
tCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAAtct > 2:27224/1‑90 (MQ=255)
ataAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACcgc < 2:146725/63‑1 (MQ=255)
ataAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACcgc > 1:146725/1‑63 (MQ=255)
tatTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGa < 2:33158/90‑1 (MQ=255)
tATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTg > 1:179667/1‑90 (MQ=255)
aTGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTgg > 2:58365/1‑90 (MQ=255)
aCCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCt > 1:78502/1‑90 (MQ=255)
|
GCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCT > NZ_CP009273/1980338‑1980501
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GAATTATTCTGCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCT > NZ_CP009273/1980328‑1980501
|
GAATTATTCTGCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTC > SRR3722090.367539/1‑100 (MQ=60)
CAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTC > SRR3722090.124720/1‑100 (MQ=60)
GTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGCATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGA > SRR3722090.51266/1‑100 (MQ=60)
GATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTT > SRR3722090.74949/1‑100 (MQ=60)
ATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCA > SRR3722090.272834/1‑100 (MQ=60)
CCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCT < SRR3722090.188317/100‑1 (MQ=60)
CCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACC < SRR3722090.115625/100‑1 (MQ=60)
ACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCtgtctcttatacacat > SRR3722090.148241/1‑84 (MQ=60)
GGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTG > SRR3722090.181580/1‑100 (MQ=60)
AGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCT > SRR3722090.79367/1‑100 (MQ=60)
|
GAATTATTCTGCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCT > NZ_CP009273/1980328‑1980501
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
