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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
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%
| 84.2
/ NA
| 26 | G5G (GGA→GGG) | ftnB | non‑heme ferritin‑like protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (18/8); total (18/8) |
GCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAACA > NZ_CP009273/1980338‑1980506
|
gCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTtc > 2:218593/1‑90 (MQ=255)
aGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAaac > 2:549091/1‑90 (MQ=255)
tAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAaactc < 2:160236/90‑1 (MQ=255)
ggTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAaactcaac > 1:245618/1‑86 (MQ=255)
ggTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAaactcaac < 2:245618/86‑1 (MQ=255)
gtTTTGATTTATCTTGCACCTCACCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCaaa > 1:169616/1‑90 (MQ=255)
aTCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGa > 1:252820/1‑90 (MQ=255)
aTCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGa > 1:655241/1‑90 (MQ=255)
gCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGtttt > 1:368916/1‑90 (MQ=255)
tctcCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCa > 1:97082/1‑90 (MQ=255)
tCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAAtct < 1:145885/90‑1 (MQ=255)
cTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAAtctc < 2:579379/90‑1 (MQ=255)
tataAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCt < 1:204328/90‑1 (MQ=255)
atatTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTg > 1:65536/1‑90 (MQ=255)
atatTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTg > 1:46061/1‑90 (MQ=255)
tatTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGa > 1:374871/1‑90 (MQ=255)
tatTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGa > 2:485481/1‑90 (MQ=255)
tATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCt > 1:440828/1‑75 (MQ=255)
tATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCt < 2:440828/75‑1 (MQ=255)
aTGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTgg < 1:549091/90‑1 (MQ=255)
aTGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTgg > 1:655836/1‑90 (MQ=255)
aTGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTgg > 1:185450/1‑90 (MQ=255)
tGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGgt > 1:301001/1‑90 (MQ=255)
tGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGgt > 2:326236/1‑90 (MQ=255)
aCCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCt > 2:208986/1‑90 (MQ=255)
tGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAACa < 2:46061/90‑1 (MQ=255)
|
GCAAACAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAACA > NZ_CP009273/1980338‑1980506
|
| 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
CAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAACAGAGTCTGAACGGC > NZ_CP009273/1980343‑1980519
|
CAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTC > SRR3722088.248026/1‑100 (MQ=60)
TAATTATGGTGTTTTGATTTATCTTGCACCTCACCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAA > SRR3722088.171323/1‑100 (MQ=60)
GTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGA > SRR3722088.663359/1‑100 (MQ=60)
GTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGA > SRR3722088.255284/1‑100 (MQ=60)
GATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTT > SRR3722088.372837/1‑100 (MQ=60)
ATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCA > SRR3722088.98077/1‑100 (MQ=60)
TCTGGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCAC < SRR3722088.147375/100‑1 (MQ=60)
GGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTG > SRR3722088.46534/1‑100 (MQ=60)
GGATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTG > SRR3722088.66219/1‑100 (MQ=60)
GATATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGA > SRR3722088.378860/1‑100 (MQ=60)
TATAAGGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGT < SRR3722088.206375/100‑1 (MQ=60)
GGATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTctgtc > SRR3722088.445904/1‑95 (MQ=60)
GATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGG > SRR3722088.187309/1‑100 (MQ=60)
GATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGG > SRR3722088.663961/1‑100 (MQ=60)
ATATTAGGTATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGT > SRR3722088.303957/1‑100 (MQ=60)
ATGGCAACCGCTGGGATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAAC < SRR3722088.555802/100‑1 (MQ=60)
GATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAACAGAGTCTGAACGGC < SRR3722088.589742/100‑1 (MQ=60)
|
CAGTAATTATGGTGTTTTGATTTATCTTGCACCTCTCCACTTCTGGATATAAGGATATTAGGTATGGCAACCGCTGGAATGCTTCTCAAACTCAACTCTCAAATGAACCGCGAGTTTTACGCATCCAATCTCTACCTTCACCTGAGTAACTGGTGTTCTGAACAGAGTCTGAACGGC > NZ_CP009273/1980343‑1980519
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ 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: ‑ |
