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 |
1,927,010 |
T→C |
K2E (AAA→GAA) |
kdgA ← |
bifunctional 4‑hydroxy‑2‑oxoglutarate aldolase/2‑dehydro‑3‑deoxy‑phosphogluconate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,927,010 | 0 | T | C | 100.0%
| 48.3
/ NA
| 16 | K2E (AAA→GAA) | kdgA | bifunctional 4‑hydroxy‑2‑oxoglutarate aldolase/2‑dehydro‑3‑deoxy‑phosphogluconate aldolase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (7/9); total (7/9) |
TGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTT > NZ_CP009273/1926931‑1927093
|
tgtTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGtt < 2:629777/90‑1 (MQ=255)
gTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTtctctc > 1:106142/1‑90 (MQ=255)
tttttACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGcc < 1:147798/90‑1 (MQ=255)
tttttACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGcc < 2:257973/90‑1 (MQ=255)
ggTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTgtcg < 1:360029/90‑1 (MQ=255)
gTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTgtcgt > 1:134028/1‑90 (MQ=255)
aCCGGGCCGGTGGTCAGGATTGATTCTGCTCTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTaa < 2:350306/90‑1 (MQ=255)
aCCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTaa < 1:141146/90‑1 (MQ=255)
cGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTaaaa > 2:176349/1‑90 (MQ=255)
ggCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAg > 1:98734/1‑90 (MQ=255)
ggATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTg < 1:22621/90‑1 (MQ=255)
gattCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGccc < 1:176349/90‑1 (MQ=255)
gattCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGccc < 1:73353/90‑1 (MQ=255)
tGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTc > 2:538249/1‑90 (MQ=255)
gCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCg > 1:525241/1‑90 (MQ=255)
aGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACATATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGtt > 2:204265/1‑90 (MQ=255)
|
TGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTT > NZ_CP009273/1926931‑1927093
|
| 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
GCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCACGCAAGGCGCT > NZ_CP009273/1926928‑1927109
|
GCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTC > SRR3722088.107233/1‑100 (MQ=60)
TTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAA < SRR3722088.149304/100‑1 (MQ=60)
ACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGT > SRR3722088.135418/1‑100 (MQ=60)
GGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAG < SRR3722088.363842/100‑1 (MQ=60)
GGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAG > SRR3722088.99754/1‑100 (MQ=60)
ACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATAC < SRR3722088.142593/100‑1 (MQ=60)
GGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTC < SRR3722088.22860/100‑1 (MQ=60)
GATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCG > SRR3722088.531596/1‑100 (MQ=60)
GATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCAC < SRR3722088.178114/100‑1 (MQ=60)
GATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCAC < SRR3722088.74104/100‑1 (MQ=60)
CCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCACGCAAGGCGCT > SRR3722088.302636/1‑100 (MQ=60)
|
GCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCACGCAAGGCGCT > NZ_CP009273/1926928‑1927109
|
| 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: ‑ |
