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 I210 R1
|
226 |
19.6 |
1130256 |
95.4% |
1078264 |
84.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
818,875 |
A→G |
N107N (AAT→AAC) |
clsB ← |
cardiolipin synthase ClsB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 818,875 | 0 | A | G | 100.0%
| 41.5
/ NA
| 14 | N107N (AAT→AAC) | clsB | cardiolipin synthase ClsB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (9/5); total (9/5) |
TATGCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACATTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAGTTCATTGACA > NZ_CP009273/818790‑818953
|
tatGCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTgg > 2:94521/1‑90 (MQ=255)
gCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTgc > 2:502898/1‑90 (MQ=255)
tCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTgcgc > 2:220651/1‑90 (MQ=255)
ggcggAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGTGCAt > 1:179599/1‑90 (MQ=255)
cgcgcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCgg < 1:27203/90‑1 (MQ=255)
gcgcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGa < 2:410955/90‑1 (MQ=255)
gcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCAt < 1:51311/53‑1 (MQ=255)
gcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCAt > 2:51311/1‑53 (MQ=255)
gcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAac > 1:234510/1‑90 (MQ=255)
gcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAac > 1:94978/1‑90 (MQ=255)
gcgTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAac > 2:438151/1‑90 (MQ=255)
caATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTg < 2:334203/90‑1 (MQ=255)
gCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAg > 1:166471/1‑90 (MQ=255)
cGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAGTTCATTGACa < 2:46192/90‑1 (MQ=255)
|
TATGCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACATTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAGTTCATTGACA > NZ_CP009273/818790‑818953
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ACATATGCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACATTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAGTTCATTGACAAACTCATCGCTGAGATCCG > NZ_CP009273/818787‑818972
|
ACATATGCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGTGCAT > SRR3722092.182595/1‑100 (MQ=60)
gcagcgtcagatgtgtataagagacagGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGG < SRR3722092.52169/73‑1 (MQ=60)
GGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAAC > SRR3722092.238339/1‑100 (MQ=60)
GGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAAC > SRR3722092.96595/1‑100 (MQ=60)
CGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGC < SRR3722092.27675/100‑1 (MQ=60)
CCACAATTTTGCGATGCATCCGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAG > SRR3722092.169259/1‑100 (MQ=60)
CGGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCtgtctcttatacacatctgacgctgccgacgaccatcttagtgta > SRR3722092.307143/1‑55 (MQ=60)
GGCGAAACACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCtgtctcttatacacatctgacgctgccgacgaccatcttagtgtag > SRR3722092.245649/1‑54 (MQ=60)
CACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTctgtctcttatacacatctgacgctgccgacgaccatcttagtgtagatctcggtg > SRR3722092.253634/1‑44 (MQ=60)
ACGTTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAGTTCATTGACAAACTCATCGCTGAGATCCG > SRR3722092.115992/1‑100 (MQ=60)
|
ACATATGCTCGGCGGAGTAATTCAGCCCGCCAATAAAGGCTATACGCGCGTCGATCACCACAATTTTGCGATGCATCCGGCGAAACACATTGGTGCGCATACCAAAAAGGCGAGGGCGGGGATCGTAGTAGCGGAACACTACGCCAGCTGCCGTCAGTTCATTGACAAACTCATCGCTGAGATCCG > NZ_CP009273/818787‑818972
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
