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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
587,628 |
A→G |
F336S (TTC→TCC) |
nrfB ← |
cyclic di‑3',5'‑guanylate‑activated glycosyltransferase NrfB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 587,628 | 0 | A | G | 100.0%
| 86.0
/ NA
| 24 | F336S (TTC→TCC) | nrfB | cyclic di‑3',5'‑guanylate‑activated glycosyltransferase NrfB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/7); total (17/7) |
TTGCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGAAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTT > NZ_CP009273/587551‑587714
|
ttGCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCGGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCgat > 2:121826/1‑91 (MQ=255)
gCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCgatga > 2:227127/1‑91 (MQ=255)
cTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCa > 1:129077/1‑91 (MQ=255)
tCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGAtt > 1:756102/1‑91 (MQ=255)
gcgcCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGAtttt > 1:643414/1‑91 (MQ=255)
gcCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTg > 1:153549/1‑91 (MQ=255)
gtagtTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCa < 2:839357/91‑1 (MQ=255)
aGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAACGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTAt > 2:276068/1‑91 (MQ=255)
ggAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCgggg > 2:448122/1‑91 (MQ=255)
ggAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCgggg > 2:539442/1‑91 (MQ=255)
gAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGa > 2:342899/1‑91 (MQ=255)
tCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAata > 2:508430/1‑91 (MQ=255)
ccATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAatat > 2:855628/1‑91 (MQ=255)
gTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGcgcacgc < 1:795936/91‑1 (MQ=255)
gTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGcgcacgc < 2:570932/91‑1 (MQ=255)
tttAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGaaaa > 1:8640/1‑63 (MQ=255)
tttAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGaaaa < 2:8640/63‑1 (MQ=255)
tttAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAg > 2:804871/1‑91 (MQ=255)
ttAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGa > 1:468706/1‑91 (MQ=255)
ttAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGa < 2:726853/91‑1 (MQ=255)
aGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCAt < 2:672176/91‑1 (MQ=255)
ttGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTc < 2:181068/49‑1 (MQ=255)
ttGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTc > 1:181068/1‑49 (MQ=255)
ttGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGttt > 1:117612/1‑91 (MQ=255)
|
TTGCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGAAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTT > NZ_CP009273/587551‑587714
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
CTGATTGCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGAAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTTGATGTCCGCGCG > NZ_CP009273/587547‑587726
|
CTGATTGCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCA > SRR3722118.131515/1‑101 (MQ=60)
CCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATT > SRR3722118.772697/1‑101 (MQ=60)
CTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTT > SRR3722118.657299/1‑101 (MQ=60)
TTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTG > SRR3722118.156492/1‑101 (MQ=60)
ATTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGctgtctcttatacacatc > SRR3722118.8824/1‑83 (MQ=60)
TTTATGGGTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGA > SRR3722118.478594/1‑101 (MQ=60)
GTTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTT < SRR3722118.813424/101‑1 (MQ=60)
TTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCtgtctcttatacacatctccgagcccacgag > SRR3722118.184642/1‑70 (MQ=60)
TTTTAAAGCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTT > SRR3722118.119794/1‑101 (MQ=60)
GCCTTGGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTTGATGTCC > SRR3722118.142638/1‑101 (MQ=60)
GGGAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTTGATGTCCGCGCG < SRR3722118.40058/101‑1 (MQ=60)
|
CTGATTGCCCCTTTGCGGTCGCGCCAGAGAAAGTAGTTCAGCGTCAGGCTGGAGGTCCATTTATGGGTTTTAAAGCCTTGGAAAACAATGCCGATGATCCAGCGGGATTTTTGTCGAACCGCAGTCGAAAAGGTATCGGGGAAATATTCGCGCACGCAGATCATGTTTGATGTCCGCGCG > NZ_CP009273/587547‑587726
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
