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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
487,218 |
A→C |
K117N (AAA→AAC) |
apt → |
adenine phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 487,218 | 0 | A | C | 100.0%
| 86.0
/ NA
| 24 | K117N (AAA→AAC) | apt | adenine phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (7/17); total (7/17) |
CGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTG > NZ_CP009273/487130‑487302
|
cGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAccc > 1:129307/1‑91 (MQ=255)
cGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAccc > 2:60538/1‑91 (MQ=255)
cGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAccc > 2:353723/1‑91 (MQ=255)
cGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAccc > 1:772205/1‑91 (MQ=255)
gggCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCg > 2:450657/1‑91 (MQ=255)
ggCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCgg > 2:547115/1‑91 (MQ=255)
tGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACaa < 1:31603/91‑1 (MQ=255)
gCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACaaa < 1:123866/91‑1 (MQ=255)
aaaCCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCtggt < 1:794861/91‑1 (MQ=255)
gTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGgacga < 1:547115/91‑1 (MQ=255)
gAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGAcc < 1:298111/91‑1 (MQ=255)
cTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACcg < 1:456611/91‑1 (MQ=255)
tGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCt > 1:801389/1‑64 (MQ=255)
tGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCt < 2:801389/64‑1 (MQ=255)
tGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACcgg > 1:503267/1‑91 (MQ=255)
aTACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCggcggc < 2:260098/91‑1 (MQ=255)
aTACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCggcggc < 2:647219/91‑1 (MQ=255)
aTACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGCGGACGACCTGCTAGCAACCggcggc < 1:721539/91‑1 (MQ=255)
cGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACt > 1:55956/1‑91 (MQ=255)
ggCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTa < 1:131254/91‑1 (MQ=255)
gCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTAt > 2:161139/1‑91 (MQ=255)
tCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCg < 2:270994/91‑1 (MQ=255)
agaTCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTaa > 1:753892/1‑91 (MQ=255)
ccACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTg < 2:623067/91‑1 (MQ=255)
gTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATcc < 2:129307/91‑1 (MQ=255)
gtGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCcg < 1:486892/90‑1 (MQ=255)
gCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCgtcgtc < 1:378163/91‑1 (MQ=255)
cATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTg < 1:569108/91‑1 (MQ=255)
|
CGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTG > NZ_CP009273/487130‑487302
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ 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
GTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAG > NZ_CP009273/487120‑487312
|
GTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCC > SRR3722118.131753/1‑101 (MQ=60)
GTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCC > SRR3722118.789173/1‑101 (MQ=60)
TGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTG < SRR3722118.32177/101‑1 (MQ=60)
GCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGG < SRR3722118.126183/101‑1 (MQ=60)
AAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGAC < SRR3722118.812334/101‑1 (MQ=60)
GTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCA < SRR3722118.558721/101‑1 (MQ=60)
GAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAAC < SRR3722118.304234/101‑1 (MQ=60)
ACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACctgtctcttatacacat > SRR3722118.818993/1‑84 (MQ=60)
ACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGG > SRR3722118.513933/1‑101 (MQ=60)
ACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACT > SRR3722118.56994/1‑101 (MQ=60)
CTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTAT < SRR3722118.466235/101‑1 (MQ=60)
ATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGCGGACGACCTGCTAGCAACCGGCGGCACTATCGAAG < SRR3722118.737378/101‑1 (MQ=60)
GGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGAC < SRR3722118.133734/101‑1 (MQ=60)
GATCAGCTGGAGATCCACGTTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAA > SRR3722118.770450/1‑101 (MQ=60)
GTGATGCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGT < SRR3722118.497186/101‑1 (MQ=60)
GCCATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGA < SRR3722118.386069/101‑1 (MQ=60)
CATCAACCCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAG < SRR3722118.581177/101‑1 (MQ=60)
|
GTCCGTAAACCGGGCAAACTGCCGCGTGAAACCATCAGTGAAACTTACGACCTGGAATACGGCACCGATCAGCTGGAGATCCACGTTGATGCCATCAAACCGGGCGACAAAGTTCTGGTGGTGGACGACCTGCTGGCAACCGGCGGCACTATCGAAGCGACCGTTAAACTGATCCGTCGTCTGGGTGGTGAAG > NZ_CP009273/487120‑487312
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
