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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,002,903 |
T→C |
S261P (TCA→CCA) |
ygeY → |
YgeY family selenium metabolism‑linked hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,002,903 | 0 | T | C | 100.0%
| 87.2
/ NA
| 27 | S261P (TCA→CCA) | ygeY | YgeY family selenium metabolism‑linked hydrolase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/14); total (13/14) |
TTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAG > NZ_CP009273/3002819‑3002984
|
tccgtCGGCAAAGGCACCCTCCCCGTTTCTGAAATCTTGTTCACATCCCAAAGCCGTTGCGCTGTAGCAGACAGCTTCGCAGTTCCAATc < 2:293006/86‑1 (MQ=255)
tCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGAcc > 1:485617/1‑90 (MQ=255)
gCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACcgtc < 1:50660/90‑1 (MQ=255)
aaGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCgtcgtc < 1:425538/90‑1 (MQ=255)
cACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTgggg > 1:1437/1‑90 (MQ=255)
aCCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGc < 1:399108/90‑1 (MQ=255)
tcttcACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGgcg > 1:307184/1‑90 (MQ=255)
cttcACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGgcgc > 1:205784/1‑90 (MQ=255)
cacaTCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCACAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCt < 2:441606/90‑1 (MQ=255)
tCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGa > 1:184873/1‑68 (MQ=255)
tCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGa < 2:184873/68‑1 (MQ=255)
tCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAgg > 2:344713/1‑80 (MQ=255)
tCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAgg < 1:344713/80‑1 (MQ=255)
ccccAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACg < 2:205784/90‑1 (MQ=255)
ccAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGaa > 2:224295/1‑90 (MQ=255)
gTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCgtcgtc > 2:208228/1‑45 (MQ=255)
gTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCgtcgtc < 1:208228/45‑1 (MQ=255)
gTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCcgcg > 1:395948/1‑90 (MQ=255)
gTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCcgcg > 1:9879/1‑90 (MQ=255)
gcTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCcctg < 1:135974/90‑1 (MQ=255)
gcTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCcctg < 1:244538/90‑1 (MQ=255)
gTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCcctgcct > 1:430921/1‑90 (MQ=255)
aGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCctgcctgc < 1:161827/90‑1 (MQ=255)
aGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGt < 1:224295/90‑1 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCctgcctgc < 2:225973/82‑1 (MQ=255)
gCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCctgcctgc > 1:225973/1‑82 (MQ=255)
gcgcAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAg > 2:268852/1‑90 (MQ=255)
|
TTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAG > NZ_CP009273/3002819‑3002984
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
TTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA > NZ_CP009273/3002809‑3003002
|
TTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATC < SRR3722114.12561/100‑1 (MQ=60)
TGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGAC < SRR3722114.151791/100‑1 (MQ=60)
GACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACC > SRR3722114.491695/1‑100 (MQ=60)
ACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCctgtc > SRR3722114.260717/1‑95 (MQ=60)
GCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTG < SRR3722114.51169/100‑1 (MQ=60)
ggtctcgtgggctcggagatgtgtataagagacagTCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGG < SRR3722114.210242/65‑1 (MQ=60)
AAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGG > SRR3722114.1453/1‑100 (MQ=60)
AAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGG < SRR3722114.430773/100‑1 (MQ=60)
ACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGG < SRR3722114.403958/100‑1 (MQ=60)
TCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCG > SRR3722114.310462/1‑100 (MQ=60)
CTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGC > SRR3722114.207784/1‑100 (MQ=60)
CTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAActgtctcttata > SRR3722114.186694/1‑88 (MQ=60)
CTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGAC < SRR3722114.348640/100‑1 (MQ=60)
TCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCG > SRR3722114.9977/1‑100 (MQ=60)
TCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCG > SRR3722114.400748/1‑100 (MQ=60)
CCGTTGCGCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCT > SRR3722114.436227/1‑100 (MQ=60)
GCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTAC < SRR3722114.246907/100‑1 (MQ=60)
GCTGTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTAC < SRR3722114.137377/100‑1 (MQ=60)
GTAGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGA > SRR3722114.228117/1‑100 (MQ=60)
AGCAGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAA < SRR3722114.163438/100‑1 (MQ=60)
AGACAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCT < SRR3722114.226424/100‑1 (MQ=60)
CAGCTGCGCAGTTCCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAAC > SRR3722114.222544/1‑100 (MQ=60)
CCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA > SRR3722114.438711/1‑100 (MQ=60)
|
TTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTA > NZ_CP009273/3002809‑3003002
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
