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 |
4,543,103 |
A→G |
E129G (GAA→GGA) |
uxuB → |
fructuronate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,543,103 | 0 | A | G | 100.0%
| 94.1
/ NA
| 27 | E129G (GAA→GGA) | uxuB | fructuronate reductase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (11/16); total (11/16) |
CGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGC > NZ_CP009273/4543025‑4543187
|
cGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACt > 1:229331/1‑90 (MQ=255)
cGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACt > 2:205319/1‑90 (MQ=255)
tCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTg > 2:71190/1‑90 (MQ=255)
ggCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCg > 1:673040/1‑90 (MQ=255)
gCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCgg > 2:585116/1‑90 (MQ=255)
tGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCa < 2:472527/90‑1 (MQ=255)
cGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAg < 2:402513/90‑1 (MQ=255)
ggTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGt < 2:262711/90‑1 (MQ=255)
tctcAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACt < 1:614366/90‑1 (MQ=255)
tctcAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACt < 2:257762/90‑1 (MQ=255)
aaCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAt < 1:377528/90‑1 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCTAGCGGTCAACTGGAtc < 1:402798/90‑1 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAtc > 2:114841/1‑90 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAtc > 2:26483/1‑90 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAtc < 1:660403/90‑1 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAtc > 1:343074/1‑90 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAtc > 1:248206/1‑90 (MQ=255)
aCGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGAtc < 1:237379/90‑1 (MQ=255)
gTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGc < 2:196070/90‑1 (MQ=255)
tCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCt < 2:163022/90‑1 (MQ=255)
tCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCt < 1:657214/90‑1 (MQ=255)
cAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATc < 1:626874/90‑1 (MQ=255)
aaaCGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCa < 2:179039/90‑1 (MQ=255)
cGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGc < 2:712883/90‑1 (MQ=255)
gCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCAc > 2:248883/1‑90 (MQ=255)
ggTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGAc < 1:249172/90‑1 (MQ=255)
cACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTgc > 1:201128/1‑90 (MQ=255)
|
CGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGC > NZ_CP009273/4543025‑4543187
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
AGCGCTGCATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAG > NZ_CP009273/4543014‑4543194
|
AGCGCTGCATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTAC < SRR3722073.241516/100‑1 (MQ=60)
AGCGCTGCATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTAC < SRR3722073.463106/100‑1 (MQ=60)
GCGCTGCATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACT > SRR3722073.234114/1‑100 (MQ=60)
GGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCG > SRR3722073.686799/1‑100 (MQ=60)
GGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATC > SRR3722073.253411/1‑100 (MQ=60)
GGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATC > SRR3722073.350343/1‑100 (MQ=60)
TCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAAT < SRR3722073.627147/100‑1 (MQ=60)
AACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACC < SRR3722073.385569/100‑1 (MQ=60)
ACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCTAGCGGTCAACTGGATCTCAATAACCC < SRR3722073.411386/100‑1 (MQ=60)
ACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCC < SRR3722073.242354/100‑1 (MQ=60)
ACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCC < SRR3722073.673941/100‑1 (MQ=60)
TCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCAC < SRR3722073.670691/100‑1 (MQ=60)
CAAACGGCGATTGTCTCTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATC < SRR3722073.639876/100‑1 (MQ=60)
CTCTAACGGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGC > SRR3722073.205204/1‑100 (MQ=60)
GGTCACGGGAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAG < SRR3722073.254403/100‑1 (MQ=60)
|
AGCGCTGCATCCGGAAATCGATGGCTGCGAAGGTATTCTCAACGCGATGGCGCGTCCGCAAACGGCGATTGTCTCTCTAACGGTCACGGAAAAAGGCTACTGCGCTGATGCGGCAAGCGGTCAACTGGATCTCAATAACCCGCTGATCAAGCACGATCTGGAAAACCCGACTGCGCCGAAG > NZ_CP009273/4543014‑4543194
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
