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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,057,664 |
T→C |
G95G (GGA→GGG) |
cobT ← |
nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,057,664 | 0 | T | C | 100.0%
| 131.5
/ NA
| 38 | G95G (GGA→GGG) | cobT | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/17); total (21/17) |
GGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGC > NZ_CP009273/2057577‑2057747
|
ggggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTccc > 2:115209/1‑90 (MQ=255)
ggggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTccc > 2:311437/1‑90 (MQ=255)
ggggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAACGCCCGCTTTTTCTGCCAGCACACACACGCCGGTTGTccc > 2:682803/1‑90 (MQ=255)
ggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCAc < 1:648884/90‑1 (MQ=255)
ggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCAc < 2:520265/90‑1 (MQ=255)
gATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACg < 1:197325/90‑1 (MQ=255)
aGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGt > 1:699694/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 2:700748/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 1:39127/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 1:277061/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 2:17781/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCatat > 1:556877/1‑90 (MQ=255)
gTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCa > 2:275221/1‑90 (MQ=255)
tATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAg > 2:539945/1‑90 (MQ=255)
tATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAg < 2:30232/90‑1 (MQ=255)
tATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAg > 1:251455/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGcc < 2:97762/83‑1 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGcc > 1:97762/1‑83 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 1:408072/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 1:284960/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 1:409124/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 2:170632/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 2:309224/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 1:369221/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 2:766646/1‑90 (MQ=255)
cAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCa > 1:430395/1‑90 (MQ=255)
gTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCa < 1:613213/52‑1 (MQ=255)
gTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCa > 2:613213/1‑52 (MQ=255)
tGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCtttt < 2:430395/90‑1 (MQ=255)
gTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGgaga < 2:409124/90‑1 (MQ=255)
tAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCCCTTCTTTTGGAGaaa > 2:187862/1‑90 (MQ=255)
cGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAc > 1:292599/1‑90 (MQ=255)
tGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCt < 2:219289/90‑1 (MQ=255)
tCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTtcc < 1:700748/90‑1 (MQ=255)
tCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTtcc < 2:568461/90‑1 (MQ=255)
gCCGGTTGTCGCATGGGTCATAGCTTCAGCCTGTATGGCAGTAACTTCTTAAAGAGAAATAGCAAACCCATCCTCCCAGACGCCTTGacc < 1:202053/90‑3 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:369221/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:77739/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 1:309224/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 1:539945/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 1:667109/90‑1 (MQ=255)
|
GGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGC > NZ_CP009273/2057577‑2057747
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ 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
GCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTAC > NZ_CP009273/2057573‑2057762
|
GCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGT > SRR3722073.713890/1‑100 (MQ=60)
ggcagcgtcagatgtgtataagagacagCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATAT < SRR3722073.625975/72‑1 (MQ=60)
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATAT > SRR3722073.282923/1‑100 (MQ=60)
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATAT > SRR3722073.568505/1‑100 (MQ=60)
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATAT > SRR3722073.40084/1‑100 (MQ=60)
GGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATT < SRR3722073.662240/100‑1 (MQ=60)
GATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTT < SRR3722073.201280/100‑1 (MQ=60)
GGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAG > SRR3722073.256739/1‑100 (MQ=60)
GTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGG > SRR3722073.99907/1‑100 (MQ=60)
GTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGG > SRR3722073.417864/1‑100 (MQ=60)
GTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGG > SRR3722073.416788/1‑100 (MQ=60)
GTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGG > SRR3722073.291000/1‑100 (MQ=60)
ATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCT > SRR3722073.377053/1‑100 (MQ=60)
ATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCA > SRR3722073.439607/1‑100 (MQ=60)
CGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAC > SRR3722073.298798/1‑100 (MQ=60)
TCTGCCAGCACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGC < SRR3722073.714958/100‑1 (MQ=60)
GGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACC < SRR3722073.551229/100‑1 (MQ=60)
GGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACC < SRR3722073.315774/100‑1 (MQ=60)
GGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACC < SRR3722073.680772/100‑1 (MQ=60)
TCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTAC < SRR3722073.139722/100‑1 (MQ=60)
|
GCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTAC > NZ_CP009273/2057573‑2057762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
