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 I196 R1
|
3 |
18.2 |
1013968 |
97.0% |
983548 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,607,750 |
G→A |
G204D (GGC→GAC) |
deoC → |
deoxyribose‑phosphate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,607,750 | 0 | G | A | 100.0%
| 79.7
/ NA
| 22 | G204D (GGC→GAC) | deoC | deoxyribose‑phosphate aldolase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/12); total (10/12) |
TGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGGCGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCAGATGCGCGTC > NZ_CP009273/4607663‑4607833
|
tgAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCggcggacg < 1:325804/90‑1 (MQ=255)
tgAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCggcggacg < 1:287619/90‑1 (MQ=255)
gcgACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGgcgtg < 1:182694/90‑1 (MQ=255)
cgACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGgcgtgc > 1:199776/1‑90 (MQ=255)
gcgcATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATgc < 2:432386/90‑1 (MQ=255)
gAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTAc > 1:421573/1‑65 (MQ=255)
gAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTAc < 2:421573/65‑1 (MQ=255)
gAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATAtctc > 1:23307/1‑90 (MQ=255)
gATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCAt > 1:215275/1‑90 (MQ=255)
gATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCAt > 1:265496/1‑90 (MQ=255)
aTCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCAtt < 2:320623/90‑1 (MQ=255)
aTCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCAtt < 2:236392/90‑1 (MQ=255)
gTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAg > 1:293402/1‑90 (MQ=255)
gATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGAt > 2:343273/1‑90 (MQ=255)
atGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGaa > 1:13190/1‑90 (MQ=255)
tGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAAc < 1:284032/90‑1 (MQ=255)
tGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAAc < 1:191494/90‑1 (MQ=255)
gggCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACt > 2:168884/1‑90 (MQ=255)
gTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTc < 2:68728/90‑1 (MQ=255)
gTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTc > 1:24971/1‑90 (MQ=255)
gTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTc < 1:223105/90‑1 (MQ=255)
aaaaaaCCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTg < 1:181202/90‑1 (MQ=255)
ggTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCa < 2:316980/90‑1 (MQ=255)
cggcggACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCAGATGCGCGTc < 2:13190/90‑1 (MQ=255)
|
TGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGGCGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCAGATGCGCGTC > NZ_CP009273/4607663‑4607833
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TAAAGTGGCTGTGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGGCGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCAGATGCGCGTCACT > NZ_CP009273/4607652‑4607836
|
TAAAGTGGCTGTGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGAC < SRR3722074.271761/100‑1 (MQ=60)
GCTGTGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGC > SRR3722074.201595/1‑100 (MQ=60)
TGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTAC < SRR3722074.290498/100‑1 (MQ=60)
TGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTAC < SRR3722074.329267/100‑1 (MQ=60)
GCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGG < SRR3722074.184386/100‑1 (MQ=60)
CATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATctgtctcttatacac > SRR3722074.426435/1‑85 (MQ=60)
CATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTC > SRR3722074.23524/1‑100 (MQ=60)
TGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCAT > SRR3722074.217209/1‑100 (MQ=60)
TGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCAT > SRR3722074.268125/1‑100 (MQ=60)
GAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAG > SRR3722074.296341/1‑100 (MQ=60)
GATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAA > SRR3722074.13303/1‑100 (MQ=60)
TGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTC > SRR3722074.25200/1‑100 (MQ=60)
TGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGC < SRR3722074.193257/100‑1 (MQ=60)
TGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGC < SRR3722074.286879/100‑1 (MQ=60)
GTAGAAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACT < SRR3722074.225112/100‑1 (MQ=60)
AAAAAACCGTTGGTTTCAAACCGGCGGACGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGC < SRR3722074.182888/100‑1 (MQ=60)
tgtataagagacaGCGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCAGATGCGCGTCACT < SRR3722074.472972/87‑1 (MQ=60)
|
TAAAGTGGCTGTGAACGCGACGCCGGAAAGCGCGCGCATCATGATGGAAGTGATCCGTGATATGGGCGTAGAAAAAACCGTTGGTTTCAAACCGGCGGGCGGCGTGCGTACTGCGGAAGATGCGCAGAAATATCTCGCCATTGCAGATGAACTGTTCGGTGCTGACTGGGCAGATGCGCGTCACT > NZ_CP009273/4607652‑4607836
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
