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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
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%
| 137.9
/ NA
| 39 | G95G (GGA→GGG) | cobT | nicotinate‑nucleotide‑‑dimethylbenzimidazole phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/18); total (21/18) |
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGC > NZ_CP009273/2057578‑2057747
|
gggATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCa > 2:569363/1‑90 (MQ=255)
aGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGt > 1:566651/1‑90 (MQ=255)
ggCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTc > 1:417686/1‑90 (MQ=255)
ggCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTc > 2:344790/1‑90 (MQ=255)
cTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCat < 2:832848/90‑1 (MQ=255)
cTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCat < 1:54828/90‑1 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCatat > 1:129499/1‑90 (MQ=255)
cagcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCatat > 1:168981/1‑90 (MQ=255)
gcagTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATAttt > 1:755708/1‑90 (MQ=255)
tATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGGTGTCCCACGGGTCATATTTTCAg > 2:214553/1‑90 (MQ=255)
tACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTa > 2:162628/1‑90 (MQ=255)
tACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTa > 2:540400/1‑90 (MQ=255)
tACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTa > 1:562532/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 1:437908/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 2:593146/1‑90 (MQ=255)
cAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGGCATATTTTCAGCCTGTATgg > 2:886171/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATgg > 1:285062/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 2:810317/1‑90 (MQ=255)
aCATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCt > 2:45623/1‑90 (MQ=255)
cAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCa > 1:22549/1‑90 (MQ=255)
aTTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCAct < 1:683449/90‑1 (MQ=255)
tGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCtttt < 1:886171/90‑1 (MQ=255)
ggACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCAct > 1:11666/1‑83 (MQ=255)
ggACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCAct < 2:11666/83‑1 (MQ=255)
ttAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGaa < 1:569363/90‑1 (MQ=255)
cgcCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAg < 2:891974/90‑1 (MQ=255)
ccGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGa < 1:569723/90‑1 (MQ=255)
gCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAcc > 2:753430/1‑90 (MQ=255)
ttGTTCTGCCAGCACACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGAcc < 2:285062/90‑1 (MQ=255)
tGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCt < 1:665596/90‑1 (MQ=255)
gTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCtt < 1:110562/90‑1 (MQ=255)
g‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGa < 2:553082/90‑1 (MQ=255)
cacacacGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGc < 1:450128/90‑1 (MQ=255)
gCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATc < 1:881547/90‑1 (MQ=255)
gCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATc < 1:358970/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCtt < 1:682157/68‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCtt > 2:682157/1‑68 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 2:174463/90‑1 (MQ=255)
ggTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGc < 1:810317/90‑1 (MQ=255)
|
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGC > NZ_CP009273/2057578‑2057747
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ 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
GATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTAC > NZ_CP009273/2057568‑2057762
|
GATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCA < SRR3722072.920741/100‑1 (MQ=60)
AGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGG < SRR3722072.307583/100‑1 (MQ=60)
GCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGT > SRR3722072.576795/1‑100 (MQ=60)
CCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTC > SRR3722072.425254/1‑100 (MQ=60)
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATAT > SRR3722072.131835/1‑100 (MQ=60)
GGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATAT > SRR3722072.171902/1‑100 (MQ=60)
GATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTT > SRR3722072.769047/1‑100 (MQ=60)
CTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCC < SRR3722072.55820/100‑1 (MQ=60)
GCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTA > SRR3722072.572621/1‑100 (MQ=60)
GTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGG > SRR3722072.445894/1‑100 (MQ=60)
ATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAGCACACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGG > SRR3722072.289949/1‑100 (MQ=60)
ATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCA > SRR3722072.22946/1‑100 (MQ=60)
TCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTG > SRR3722072.11887/1‑100 (MQ=60)
ATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAG < SRR3722072.695680/100‑1 (MQ=60)
TGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAG < SRR3722072.901418/100‑1 (MQ=60)
TTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCC < SRR3722072.579543/100‑1 (MQ=60)
CCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTC < SRR3722072.579907/100‑1 (MQ=60)
TGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATctgtctcttatacacatctccgagcccacgagacgtccgattatctcgtatgccgtc > SRR3722072.336272/1‑43 (MQ=60)
TGTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGA < SRR3722072.677497/100‑1 (MQ=60)
GTTCTGCCAG‑‑CACACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGAC < SRR3722072.112607/100‑1 (MQ=60)
tataagagacagCACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGAC < SRR3722072.694362/88‑1 (MQ=60)
CACACACGCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGC < SRR3722072.458372/100‑1 (MQ=60)
GCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATA < SRR3722072.896718/100‑1 (MQ=60)
GCCGGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATA < SRR3722072.365323/100‑1 (MQ=60)
GGTTGTCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACC < SRR3722072.824442/100‑1 (MQ=60)
TCCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTAC < SRR3722072.766733/100‑1 (MQ=60)
|
GATAAGCCCGGGGATAGGCTCAGCAGTATCAATACCAACATCAATTACGTGGACGTTAGCGCCCGCTTGTTCTGCCAG‑‑CACACACACGCCGGTTGTTCCACGGGTCATATTTTCAGCCTGTATGGCTGTCACTTCTTTTGGAGAAATAGCGACCCCTTCCTCCCAGACGCCGTGATCGGCACACATAACCAGTAC > NZ_CP009273/2057568‑2057762
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
