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 |
|
A2 F5 I181 R1
|
159 |
32.7 |
1279082 |
96.9% |
1239430 |
121.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,589,054 |
T→G |
T69P (ACC→CCC) |
opgB ← |
phosphatidylglycerol‑‑membrane‑oligosaccharide glycerophosphotransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,589,054 | 0 | T | G | 100.0%
| 86.1
/ NA
| 27 | T69P (ACC→CCC) | opgB | phosphatidylglycerol‑‑membrane‑oligosaccharide glycerophosphotransferase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (15/12); total (15/12) |
GCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGGT > NZ_CP009273/4588922‑4589186
|
gcagGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCt < 1:388988/139‑1 (MQ=255)
tGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGt > 1:458199/1‑139 (MQ=255)
aTGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGta > 2:54767/1‑136 (MQ=255)
ggTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGtata > 2:452965/1‑136 (MQ=255)
atgatgGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACcgcg < 1:452965/139‑1 (MQ=255)
acgacgGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCCAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATa > 2:547023/1‑139 (MQ=255)
ggATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGt < 1:157924/139‑1 (MQ=255)
cgcACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCa < 2:83527/77‑1 (MQ=255)
cgcACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCa > 1:83527/1‑77 (MQ=255)
cgcACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTg > 1:453285/1‑139 (MQ=255)
cgcACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGAGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTg > 2:312299/1‑139 (MQ=255)
cACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAg < 1:527084/89‑1 (MQ=255)
cACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAg > 2:527084/1‑89 (MQ=255)
cGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACcgc < 1:438184/93‑1 (MQ=255)
cGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACcgc > 2:438184/1‑93 (MQ=255)
tGTCAGCCCCAGCACAATGCCGACACCCGGCAAAATGTATTTGCTGACGCCAGCACCGAGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGCCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGata > 2:236660/1‑139 (MQ=255)
tCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATAtt > 1:401871/1‑139 (MQ=255)
aGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTa < 2:458199/139‑1 (MQ=255)
ccAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAAc < 1:54767/139‑1 (MQ=255)
cacaATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGAc > 2:214543/1‑138 (MQ=255)
aaTGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAAt < 1:51150/139‑1 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAAc < 1:321621/130‑1 (MQ=255)
tGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAAc > 2:321621/1‑130 (MQ=255)
ccAGCAGCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAaccacc < 2:102429/139‑1 (MQ=255)
cACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGt > 2:617415/1‑66 (MQ=255)
cACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGt < 1:617415/66‑1 (MQ=255)
cACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGgt > 2:503054/1‑139 (MQ=255)
|
GCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGGT > NZ_CP009273/4588922‑4589186
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGGTGTTACGTCCCGCTTTC > NZ_CP009273/4588915‑4589202
|
AGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGG < SRR3722135.208365/151‑1 (MQ=60)
gtataagagacagGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGG < SRR3722135.614974/137‑1 (MQ=60)
CGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTT > SRR3722135.464430/1‑151 (MQ=60)
AGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGG < SRR3722135.394418/151‑1 (MQ=60)
atggaacggaaatcggagtacgaccgctagatcggtatttttttttcaagcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagCGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGA < SRR3722135.181627/38‑1 (MQ=60)
agtacggtctcgtgggctcggagatgtgtataagagacagaCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAAC < SRR3722135.534062/110‑1 (MQ=60)
cggtctcgtgggctcggagatgtgtataagagacagGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCATCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATAC < SRR3722135.444150/115‑1 (MQ=60)
GATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACC < SRR3722135.459093/151‑1 (MQ=60)
AGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGC < SRR3722135.160106/151‑1 (MQ=60)
ATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatg > SRR3722135.84651/1‑99 (MQ=60)
ATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGG > SRR3722135.459419/1‑151 (MQ=60)
gcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAAC < SRR3722135.625471/88‑1 (MQ=60)
GAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTT > SRR3722135.407432/1‑151 (MQ=60)
CCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCC < SRR3722135.326222/151‑1 (MQ=60)
CCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCC < SRR3722135.55498/151‑1 (MQ=60)
CAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCAC < SRR3722135.51841/151‑1 (MQ=60)
CGCCAGCACCGGGCAGGCTGTTGGTTATGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCtgtctcttatacacatctccgagcccacgagaccgtact > SRR3722135.151683/1‑110 (MQ=60)
CGCCAGCACCGGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGGTGTTACG > SRR3722135.59700/1‑151 (MQ=60)
GGGCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGGTGTTACGTCCCGCTTTC > SRR3722135.266558/1‑151 (MQ=60)
|
AGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAGTAAAATAGTCGCTGGCAAACAGGGTGATATTTAAAACGACAAATAGCCCCAGCACCGTTAACGTGGCTGCAAACCACCAGGTGTTACGTCCCGCTTTC > NZ_CP009273/4588915‑4589202
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
