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 F3 I96 R1
|
172 |
34.7 |
2005794 |
96.2% |
1929573 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,673,542 |
A→G |
K287E (AAG→GAG) |
ydgH → |
DUF1471 family protein YdgH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,673,542 | 0 | A | G | 100.0%
| 125.7
/ NA
| 44 | K287E (AAG→GAG) | ydgH | DUF1471 family protein YdgH |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (15/29); total (15/29) |
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTATAA > NZ_CP009273/1673458‑1673624
|
atgGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGaaa < 1:924736/90‑1 (MQ=255)
atgGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGaaa < 1:750782/90‑1 (MQ=255)
atgGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGaaa < 2:295629/90‑1 (MQ=255)
tgGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAg < 1:145271/90‑1 (MQ=255)
ggTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAgg > 2:838004/1‑90 (MQ=255)
ggTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAgg > 2:80924/1‑90 (MQ=255)
tCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTg > 1:199625/1‑90 (MQ=255)
ccGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCt < 1:792122/90‑1 (MQ=255)
cGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTa > 2:926347/1‑90 (MQ=255)
cGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTa < 1:838004/90‑1 (MQ=255)
gTTGGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa > 2:12049/1‑90 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGaaa < 1:365051/82‑1 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGaaa > 2:365051/1‑82 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa > 2:425791/1‑90 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa < 2:151791/90‑1 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa < 2:836066/90‑1 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa < 1:952591/90‑1 (MQ=255)
aTCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACcac < 1:236181/90‑1 (MQ=255)
aTCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACcac < 1:80924/90‑1 (MQ=255)
ggCACCTAGGACAACACGACACAAGTCTCCTATCAGGTAGCAAAAGGTGCCGCGGAGAAAGGTGTAAAGTATTCCCCCATCCCCCGCCAg < 1:875188/90‑1 (MQ=255)
ggCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAg > 2:997772/1‑90 (MQ=255)
aaCATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGt < 2:199625/90‑1 (MQ=255)
aaCATGACCGAAGTCTCCTATCAGGTTGCAAACCGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGt < 2:133707/90‑1 (MQ=255)
aaCATGACCGAAGTCTCCTATAGGGTTGCAAACGGGGCGGGGGAAAAGGGTGCTAAGTATTCCCACACCCCCCGCCAGTGGCAGGAACGt < 1:744086/90‑1 (MQ=255)
aTGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGt > 2:684482/1‑90 (MQ=255)
tgcccGAAGTCTCCTATCAGGTTGCAAACCGTGCCGGGGAAAAAGGTGCTAATTATTCCCACACCCCCCGCCAGTGGCAGGAACGTGGta < 1:684482/87‑1 (MQ=255)
aCCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGtaat < 2:574251/90‑1 (MQ=255)
ctcCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGAc > 1:136967/1‑90 (MQ=255)
ccTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCg > 2:84599/1‑90 (MQ=255)
taccAGGTTGCAAAACGTGCCGCGGAAAAAGGTGCTAAGTATTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 2:613346/87‑1 (MQ=255)
tATCAGTTTGCAAACCGTGCCGGGGAAAAAGGTGCTAAGTATTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 1:327405/90‑1 (MQ=255)
tATCAGGTTGCGAAACGTGCCGGGGAAAAGGGTGCAAAGTTTTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 1:533618/90‑1 (MQ=255)
tATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 2:136967/90‑1 (MQ=255)
tATCAGGTTGCAAAACGTGCCGCGGAAAAAGGTGCTAAGTATTACCACATCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 2:117831/90‑1 (MQ=255)
tATCAGGTTGAGAAACGTGCCGGGGAAAAGGGTGCTAATTATTACCACACCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 1:539422/90‑1 (MQ=255)
ggTTGCGAACCGGGCCGGGGAGAAGGGTGCTAAGTTTTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAgcgc < 1:582210/90‑1 (MQ=255)
ggTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGGGGTAATAACCTGACCGTCAgcgc > 1:898966/1‑90 (MQ=255)
ggTTGCAAACCGGGCCGGGGAAAAAGGTGCAAAGTATTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAgcgc < 1:84599/90‑1 (MQ=255)
gTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAg < 2:488754/54‑1 (MQ=255)
gTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAg > 1:488754/1‑54 (MQ=255)
gCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGAt > 2:386990/1‑90 (MQ=255)
cGAAACGTGCCGCGGAGAAAGGTGCAAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATc < 2:34900/90‑1 (MQ=255)
cGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGtat > 2:189372/1‑90 (MQ=255)
ggCCGCGGAGAAAGGTGTTAATTTTTCCCCCACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTataa < 1:919319/89‑1 (MQ=255)
|
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTATAA > NZ_CP009273/1673458‑1673624
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCGACCGCAGCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTAT > NZ_CP009273/1673443‑1673622
|
GCGACCGCAGCGATGATGGTCCCGTTCGACAGCATAAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGG < SRR3722236.911484/100‑1 (MQ=60)
CAGCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGG < SRR3722236.94577/100‑1 (MQ=60)
GCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTG > SRR3722236.202604/1‑100 (MQ=60)
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGT < SRR3722236.941069/100‑1 (MQ=60)
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGT < SRR3722236.370208/100‑1 (MQ=60)
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGT < SRR3722236.763657/100‑1 (MQ=60)
TGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTA < SRR3722236.147382/100‑1 (MQ=60)
CCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACC < SRR3722236.805846/100‑1 (MQ=60)
CGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCA < SRR3722236.852658/100‑1 (MQ=60)
GTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCAC < SRR3722236.969398/100‑1 (MQ=60)
ATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCC < SRR3722236.82062/100‑1 (MQ=60)
ATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCC < SRR3722236.239700/100‑1 (MQ=60)
TGCCCGAAGTCTCCTATCAGGTTGCAAACCGTGCCGGGGAAAAAGGTGCTAATTATTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGAC < SRR3722236.695944/100‑1 (MQ=56)
TGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGGACGTGGGAATAACCTGAC > SRR3722236.138926/1‑100 (MQ=60)
TCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGGGGTAATAACCTGACCGTCAGCGC > SRR3722236.914806/1‑100 (MQ=60)
CTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGgacctggctcttataaacatctgacgctg > SRR3722236.496111/1‑71 (MQ=60)
TATCAGTTTGCAAACCGTGCCGGGGAAAAAGGTGCTAAGTATTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATC < SRR3722236.332076/100‑1 (MQ=60)
TATCAGGTTGCGAAACGTGCCGGGGAAAAGGGTGCAAAGTTTTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATC < SRR3722236.541809/100‑1 (MQ=60)
TATCAGGTTGAGAAACGTGCCGGGGAAAAGGGTGCTAATTATTACCACACCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATC < SRR3722236.547712/100‑1 (MQ=60)
GGTTGCGAACCGGGCCGGGGAGAAGGGTGCTAAGTTTTCCCACACCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTAT < SRR3722236.591254/100‑1 (MQ=60)
|
GCGACCGCAGCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTAT > NZ_CP009273/1673443‑1673622
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
