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 |
|
A2 F5 I181 R1
|
159 |
32.7 |
1279082 |
96.9% |
1239430 |
121.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
467,406 |
Δ1 bp |
coding (1315/1782 nt) |
mdlB → |
SmdB family multidrug efflux ABC transporter permease/ATP‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 467,406 | 0 | C | . | 100.0%
| 97.4
/ NA
| 23 | coding (1315/1782 nt) | mdlB | SmdB family multidrug efflux ABC transporter permease/ATP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (9/14); total (9/14) |
CGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGGCGGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAGCA > NZ_CP009273/467272‑467509
|
cGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGgggggga > 1:316585/1‑137 (MQ=255)
gAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGatat < 2:316585/139‑1 (MQ=255)
tGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGc < 2:338365/139‑1 (MQ=255)
tcgtcCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAgg < 2:617823/139‑1 (MQ=255)
gcgcgcTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAg < 2:162123/139‑1 (MQ=255)
cTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGgc > 1:602505/1‑139 (MQ=255)
gcgcCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGgcgc > 2:375152/1‑139 (MQ=255)
gcCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGcgcg > 2:90399/1‑138 (MQ=255)
gTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAg < 1:375152/139‑1 (MQ=255)
tGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACACGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGc > 1:513173/1‑139 (MQ=255)
gCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCg < 2:261050/138‑1 (MQ=255)
gCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGa < 1:9545/139‑1 (MQ=255)
cAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGAc < 1:612386/139‑1 (MQ=255)
cAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGAc < 2:564515/139‑1 (MQ=255)
agcaAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTac < 1:524636/139‑1 (MQ=255)
tCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTgg < 2:457017/97‑1 (MQ=255)
tCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTgg > 1:457017/1‑97 (MQ=255)
tCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACAcgccgc > 2:415387/1‑139 (MQ=255)
cTGGCGGATCCCTTCCTCGCCAACGTGACGCTGGGG‑GGGAGATCTCCGAAGAACGCGTCTGGCAGGCGCGGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAGCa < 2:434088/139‑1 (MQ=255)
cTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAg > 1:220360/1‑137 (MQ=255)
tACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCa < 2:267105/74‑1 (MQ=255)
tACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCa > 1:267105/1‑74 (MQ=255)
aCGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACgg > 1:502064/1‑93 (MQ=255)
aCGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACgg < 2:502064/93‑1 (MQ=255)
|
CGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGGCGGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAGCA > NZ_CP009273/467272‑467509
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
ATTACCCGCTAACGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGGCGGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAGCAGGGGAATAATCTCTCAGTTGGGC > NZ_CP009273/467260‑467532
|
ATTACCCGCTAACGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGAT < SRR3722135.108462/151‑1 (MQ=60)
TTACCCGCTAACGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGAT > SRR3722135.321114/1‑150 (MQ=60)
GTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCG > SRR3722135.610401/1‑151 (MQ=60)
GCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACACGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCG > SRR3722135.520014/1‑151 (MQ=60)
CGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTT < SRR3722135.380392/151‑1 (MQ=60)
GGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACA < SRR3722135.9673/151‑1 (MQ=60)
GCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACAC < SRR3722135.620378/151‑1 (MQ=60)
GTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCtgtctcttatacacatctccgagcccacg > SRR3722135.463229/1‑120 (MQ=60)
CAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGG < SRR3722135.531581/151‑1 (MQ=60)
ATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAGC > SRR3722135.223459/1‑149 (MQ=60)
GTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccg > SRR3722135.270900/1‑96 (MQ=60)
CTTCCTCGCCAACGTGACGCTGGGG‑GGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCtgtctcttatacacatctccgagcccacgagaccg > SRR3722135.508761/1‑116 (MQ=60)
|
ATTACCCGCTAACGGAAGGTGAGATTCGCCTTGATGGTCGTCCATTAAGTTCGCTAAGTCACAGCGCGCTGCGCCAGGGCGTGGCAATGGTGCAGCAAGATCCGGTGGTGCTGGCGGATACCTTCCTCGCCAACGTGACGCTGGGGCGGGATATCTCCGAAGAACGCGTCTGGCAGGCGCTGGAAACCGTGCAACTGGCGGAGCTGGCGCGTAGCATGAGCGACGGTATTTACACGCCGCTGGGCGAGCAGGGGAATAATCTCTCAGTTGGGC > NZ_CP009273/467260‑467532
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
