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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
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%
| 37.5
/ NA
| 15 | K287E (AAG→GAG) | ydgH | DUF1471 family protein YdgH |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (3/12); total (3/12) |
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTA > NZ_CP009273/1673458‑1673621
|
atgGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGaaa < 1:13020/90‑1 (MQ=255)
cccGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGc < 2:154089/90‑1 (MQ=255)
cGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTa < 1:361349/90‑1 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa < 2:308897/90‑1 (MQ=255)
gTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTaa < 2:356071/90‑1 (MQ=255)
ctGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCAc < 1:128975/85‑1 (MQ=255)
ctGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCAc > 2:128975/1‑85 (MQ=255)
tGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCa > 2:55599/1‑90 (MQ=255)
cAACATGACCGAAGTCTCCTATCAGGTTGCGAACCGTGCCGCGGAAAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACg < 1:301982/90‑1 (MQ=255)
aaCATGCCCGAAGTCTCCTATCAGGTTGCAAAACGTGCCGGGGAAAAAGGTGCTAAGTATTACCACATCCCCCGCCAGTGGCAGGAACGt < 1:433554/90‑1 (MQ=255)
cGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAAAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGtaataa < 1:451052/90‑1 (MQ=255)
ccTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCg > 1:278967/1‑90 (MQ=255)
taccAGGTTGCGAACCGTGCCGGGGAGAAAGGTGCTAAGTATTCCCCCATCCCCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 2:164435/87‑1 (MQ=255)
tATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTc < 1:55599/90‑1 (MQ=255)
aCGTGCCGGGGAGAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGta < 1:303093/90‑1 (MQ=255)
|
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTA > NZ_CP009273/1673458‑1673621
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAGCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTATAAATAACTA > NZ_CP009273/1673450‑1673631
|
CAGCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGG < SRR3722114.265223/100‑1 (MQ=60)
gacagTGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGT < SRR3722114.493088/95‑1 (MQ=60)
ATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGT < SRR3722114.13144/100‑1 (MQ=60)
CGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCA < SRR3722114.365591/100‑1 (MQ=60)
gagacagGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCANA < SRR3722114.411599/93‑1 (MQ=60)
ATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGG < SRR3722114.130319/100‑1 (MQ=60)
CAACATGACCGAAGTCTCCTATCAGGTTGCGAACCGTGCCGCGGAAAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAAC < SRR3722114.305209/100‑1 (MQ=60)
AACATGCCCGAAGTCTCCTATCAGGTTGCAAAACGTGCCGGGGAAAAAGGTGCTAAGTATTACCACATCCCCCGCCAGTGGCAGGAACGTGGTAATAACC < SRR3722114.438890/100‑1 (MQ=60)
ACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCG > SRR3722114.281897/1‑100 (MQ=60)
CGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGGAAAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTC < SRR3722114.456666/100‑1 (MQ=60)
TATCAGGTTGCGAACCGTGCCGCGGAGAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATC < SRR3722114.56150/100‑1 (MQ=60)
ACGTGCCGGGGAGAAAGGTGCTAAGTATTCCCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTATAAATAACTA < SRR3722114.306329/100‑1 (MQ=60)
|
CAGCGATGATGGTCCCGTTCGACAGCATCAAATTCTCTGGCAACTACGGCAACATGACCGAAGTCTCCTATCAGGTTGCGAAACGTGCCGCGAAGAAAGGTGCTAAGTATTACCACATCACCCGCCAGTGGCAGGAACGTGGTAATAACCTGACCGTCAGCGCAGATCTGTATAAATAACTA > NZ_CP009273/1673450‑1673631
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
