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 |
502,414 |
T→C |
D42G (GAT→GGT) |
ybaK ← |
Cys‑tRNA(Pro)/Cys‑tRNA(Cys) deacylase YbaK |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 502,414 | 0 | T | C | 100.0%
| 50.2
/ NA
| 17 | D42G (GAT→GGT) | ybaK | Cys‑tRNA(Pro)/Cys‑tRNA(Cys) deacylase YbaK |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (11/6); total (11/6) |
ACCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGATCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTAT > NZ_CP009273/502335‑502486
|
aCCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCaa > 1:338517/1‑90 (MQ=255)
gACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTaa > 2:65295/1‑90 (MQ=255)
gACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTaa > 2:547076/1‑90 (MQ=255)
gACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTaa > 2:483286/1‑90 (MQ=255)
ttCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTg > 2:93089/1‑90 (MQ=255)
atCACCGTTCACTGCCACCAGCAGCGTTCTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTc > 1:315734/1‑90 (MQ=255)
tCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCa > 2:276703/1‑90 (MQ=255)
tCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCa > 1:139646/1‑90 (MQ=255)
aCCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGc < 1:226240/90‑1 (MQ=255)
gTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCgg > 2:358280/1‑90 (MQ=255)
aCTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGGCTTCATCGCCAAAATTGGTTTCAGCCGGATCg < 2:133129/90‑1 (MQ=255)
aCTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCg < 2:407391/90‑1 (MQ=255)
aCTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCg < 1:290868/90‑1 (MQ=255)
cTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGt > 1:312477/1‑90 (MQ=255)
ccaGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGt < 2:528228/90‑1 (MQ=255)
cagcagCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACAACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTa < 1:425114/90‑1 (MQ=255)
gcGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTAt > 2:52261/1‑90 (MQ=255)
|
ACCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGATCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTAT > NZ_CP009273/502335‑502486
|
| 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
AAGATCCAGTTGACCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGATCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTATGGATTTGAAACGAAATCTTGTT > NZ_CP009273/502323‑502508
|
AAGATCCAGTTGACCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTC < SRR3722088.298423/100‑1 (MQ=60)
GATCCAGTTGACCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAA > SRR3722088.342062/1‑100 (MQ=60)
GGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTCTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTC > SRR3722088.318922/1‑100 (MQ=60)
GTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCA > SRR3722088.141080/1‑100 (MQ=60)
TCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGT > SRR3722088.315613/1‑100 (MQ=60)
ACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGC < SRR3722088.228500/100‑1 (MQ=60)
ACTGCCACCAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGG < SRR3722088.293649/100‑1 (MQ=60)
CAGCAGCGTTTTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACAACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTATGGATT < SRR3722088.429885/100‑1 (MQ=60)
TTGTAGACCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTATGGATTTGAAACGAAA > SRR3722088.664400/1‑100 (MQ=60)
CCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTATGGATTTGAAACGAAATCTTGTT > SRR3722088.527194/1‑100 (MQ=60)
CCTGACCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTATGGATTTGAAACGAAATCTTGTT > SRR3722088.649869/1‑100 (MQ=60)
|
AAGATCCAGTTGACCTGCGACCGGCGTAACGGCCACGGCAAGGTGTTTCATATCACCGTTCACTGCCACCAGCAGCGTTTTGTAGACCTGATCCGGATTCAAACCTAATTTTTTGACGACTTCATCGCCAAAATTGGTTTCAGCCGGATCGTGCTCGTAGGTATGGATTTGAAACGAAATCTTGTT > NZ_CP009273/502323‑502508
|
| 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: ‑ |
