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 |
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%
| 41.2
/ NA
| 13 | 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 (5/8); total (5/8) |
ACCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGAC > NZ_CP009273/1926925‑1927089
|
aCCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACATCCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTccatc < 1:135716/90‑1 (MQ=255)
aCCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTccatc < 1:280694/90‑1 (MQ=255)
cgcgTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCag < 1:132817/90‑1 (MQ=255)
gATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTccatca > 1:328794/1‑65 (MQ=255)
gATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTccatca < 2:328794/65‑1 (MQ=255)
cGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTaaaa < 1:527550/90‑1 (MQ=255)
cAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGCTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGt > 2:168404/1‑90 (MQ=255)
ggATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTg < 1:726315/90‑1 (MQ=255)
gattCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGccc > 2:302664/1‑90 (MQ=255)
gattCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGccc < 2:537383/90‑1 (MQ=255)
gattCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGccc < 2:723051/90‑1 (MQ=255)
gattCTGCACTTGTTTTCCAGTTTTCCATCAGACTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGccc < 2:409175/90‑1 (MQ=255)
tGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTc > 1:600705/1‑90 (MQ=255)
tGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTc > 2:311996/1‑90 (MQ=255)
tGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTATCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTc > 1:565249/1‑90 (MQ=255)
ttCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGAc < 1:614402/90‑1 (MQ=255)
ttCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGAc < 1:97340/90‑1 (MQ=255)
|
ACCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGAC > NZ_CP009273/1926925‑1927089
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
ACCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCAC > NZ_CP009273/1926925‑1927099
|
ACCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACATCCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCT < SRR3722073.138540/100‑1 (MQ=60)
ACCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCT < SRR3722073.286630/100‑1 (MQ=60)
CGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCT < SRR3722073.135590/100‑1 (MQ=60)
TTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCctgtctcttatacac > SRR3722073.335775/1‑85 (MQ=60)
CGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAG < SRR3722073.538605/100‑1 (MQ=60)
GGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTC > SRR3722073.613233/1‑100 (MQ=60)
GGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTC < SRR3722073.740968/100‑1 (MQ=60)
GGATTGATTCTGCACTTGTTTTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTATCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTC > SRR3722073.577042/1‑100 (MQ=60)
TTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCAC < SRR3722073.627184/100‑1 (MQ=60)
TTCCAGTTTTCCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCAC < SRR3722073.99479/100‑1 (MQ=60)
|
ACCGCGTGTTCCAGTTTTTTTACCACGATAACCGGTACAACCGGGCCGGTGGTCAGGATTGATTCTGCACTTGTTTTCCAGTTTTTCATCAGAGTTTTCTCTCGCCTGATTACAAATTTGTCGTCTTAAAAAGTGATACAGGTTGCGCCCTGTTCGGCACCGGACAGTTTTTCAC > NZ_CP009273/1926925‑1927099
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
