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 I179 R1
|
182 |
40.3 |
1547118 |
96.8% |
1497610 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
724,034 |
A→C |
V52G (GTC→GGC) |
kdpA ← |
potassium‑transporting ATPase subunit KdpA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 724,034 | 0 | A | C | 100.0%
| 79.5
/ NA
| 23 | V52G (GTC→GGC) | kdpA | potassium‑transporting ATPase subunit KdpA |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (11/12); total (11/12) |
TGGATTAAGCGGCAGATAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGACGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTAAAAACGTGGCGATC > NZ_CP009273/723916‑724165
|
tgGATTAAGCGGCAGATAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAg > 2:444471/1‑138 (MQ=255)
tAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCg < 1:444471/139‑1 (MQ=255)
gCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCggg > 1:226919/1‑136 (MQ=255)
gCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCggg > 2:283168/1‑136 (MQ=255)
cATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGa < 1:176516/139‑1 (MQ=255)
aTAAAAAACATCCCCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGaa < 2:443818/139‑1 (MQ=255)
aGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTaa > 1:544549/1‑139 (MQ=255)
ccGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAg < 2:226919/139‑1 (MQ=255)
ttCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAAc > 2:601186/1‑86 (MQ=255)
ttCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAAc < 1:601186/86‑1 (MQ=255)
gCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTa > 1:687765/1‑137 (MQ=255)
gagaATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGa < 2:335180/139‑1 (MQ=255)
agaATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCg < 1:595374/82‑1 (MQ=255)
agaATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCg > 2:595374/1‑82 (MQ=255)
tgtcacaAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACgcgc < 1:478860/136‑1 (MQ=255)
caAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCa < 1:283168/139‑1 (MQ=255)
tCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAg > 1:552204/1‑139 (MQ=255)
ccAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAg > 2:52982/1‑138 (MQ=255)
cAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGt > 1:350908/1‑138 (MQ=255)
ggTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGa > 2:248989/1‑101 (MQ=255)
ggTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGa < 1:248989/101‑1 (MQ=255)
ggTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTAAAAACGTGGCGAt < 2:544549/139‑1 (MQ=255)
gTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTAAAAACGTGGCGATc < 2:687765/139‑1 (MQ=255)
gagcCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCa < 1:358586/63‑1 (MQ=255)
gagcCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCa > 2:358586/1‑63 (MQ=255)
|
TGGATTAAGCGGCAGATAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGACGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTAAAAACGTGGCGATC > NZ_CP009273/723916‑724165
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGATAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGACGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTA > NZ_CP009273/723929‑724151
|
agtacggtctcgtgggctcggagatgtgtataagagacagGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGACCGTTGTAC < SRR3722133.609108/108‑1 (MQ=60)
gagatctagtacggtctcgtgggctcggagatgtgtataagagacagTGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGA < SRR3722133.603230/104‑1 (MQ=60)
ATAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGA < SRR3722133.450523/151‑1 (MQ=60)
GTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGA > SRR3722133.230012/1‑148 (MQ=60)
ACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAAT < SRR3722133.178833/151‑1 (MQ=60)
ACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAAT > SRR3722133.551798/1‑151 (MQ=60)
caagcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagTCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCG < SRR3722133.363625/85‑1 (MQ=60)
AGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAA > SRR3722133.696656/1‑149 (MQ=60)
gggctcggagatgtgtataagagacagGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCAC < SRR3722133.252391/123‑1 (MQ=60)
ATGTCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTA < SRR3722133.485342/151‑1 (MQ=60)
ACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACC < SRR3722133.287037/151‑1 (MQ=60)
AAGATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGT > SRR3722133.559582/1‑151 (MQ=60)
GATATTGCTTCCAGTTCATCTCACGGTCAGAGCCGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTA > SRR3722133.355819/1‑150 (MQ=60)
|
AGATAGTGCTGACCGAGCAACATAAAAAACAGCACCGCCAGCCCCAGCATGTTCAGGCCGAGAATGGCACAAAGATATTGCTTCCAGTTCATCTCACGGTCAGAGACGCCAAGTGCGCGAAAAAGTACGCGCTCAACGCCCGTTGTACCGGGAAGAGGAATGTCATTAATCAGCCGCGCCAGCCCGCTGCCTAAAGGACGCGCCAGCACCATTAACACCAGTA > NZ_CP009273/723929‑724151
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
