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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
635,449 |
T→C |
S81P (TCC→CCC) |
ahpF → |
alkyl hydroperoxide reductase subunit F |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 635,449 | 0 | T | C | 100.0%
| 83.4
/ NA
| 24 | S81P (TCC→CCC) | ahpF | alkyl hydroperoxide reductase subunit F |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/9); total (15/9) |
AGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAG > NZ_CP009273/635370‑635526
|
agaTAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGc > 1:151691/1‑91 (MQ=255)
ttGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCa > 1:672188/1‑91 (MQ=255)
ttGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCa > 1:763070/1‑91 (MQ=255)
tGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCAc > 2:199116/1‑91 (MQ=255)
gCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCAcc > 2:901354/1‑91 (MQ=255)
ggTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCg < 2:235237/91‑1 (MQ=255)
cGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGc > 2:502121/1‑91 (MQ=255)
tCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGt < 1:887589/91‑1 (MQ=255)
tCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGt < 2:1084193/91‑1 (MQ=255)
tCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGt > 2:342813/1‑91 (MQ=255)
cTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCtgt < 2:763070/91‑1 (MQ=255)
cACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAcc < 2:428709/91‑1 (MQ=255)
ccAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTc > 2:405337/1‑91 (MQ=255)
aGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCAt > 1:879058/1‑91 (MQ=255)
aGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCAt > 2:343708/1‑91 (MQ=255)
ggTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATc < 1:839369/91‑1 (MQ=255)
ggTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATc < 2:829348/91‑1 (MQ=255)
cAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCg > 2:146136/1‑91 (MQ=255)
cAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCg > 1:725285/1‑91 (MQ=255)
aaCCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGa > 1:482858/1‑91 (MQ=255)
aGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAcc > 2:120957/1‑71 (MQ=255)
aGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAcc < 1:120957/71‑1 (MQ=255)
ggggCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAaagaa > 1:941222/1‑91 (MQ=255)
aCGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAg < 2:756236/91‑1 (MQ=255)
|
AGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAG > NZ_CP009273/635370‑635526
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
AGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCC > NZ_CP009273/635349‑635548
|
ctcggagatgtgtataagagacagTAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCC < SRR3722125.440195/77‑1 (MQ=60)
CACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGG < SRR3722125.582438/101‑1 (MQ=60)
CCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGC > SRR3722125.154583/1‑101 (MQ=60)
AGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCA > SRR3722125.686660/1‑101 (MQ=60)
AGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCA > SRR3722125.779604/1‑101 (MQ=60)
TCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGAC < SRR3722125.907232/101‑1 (MQ=60)
TCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCAT > SRR3722125.898502/1‑101 (MQ=60)
taagagacagGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATC < SRR3722125.123227/91‑1 (MQ=60)
ACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCG > SRR3722125.740917/1‑101 (MQ=60)
CCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGA > SRR3722125.493048/1‑101 (MQ=60)
GGTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGA < SRR3722125.857854/101‑1 (MQ=60)
GTTCCAACCAGGGGCCACGTTTTGCAGGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAA > SRR3722125.962138/1‑101 (MQ=60)
GGCCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGCGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCG > SRR3722125.742726/1‑101 (MQ=60)
CCCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCtgtctcttatacacatctccgagcccacgagactaggc > SRR3722125.263774/1‑63 (MQ=60)
|
AGACAAAGTCACCTTTAAAGAAGATAACAGCTTGCCGGTGCGTAAGCCGTCTTTCCTGATCACCAACCCAGGTTCCAACCAGGGGCCACGTTTTGCAGGCTCCCCGCTGGGCCACGAGTTCACCTCGCTGGTACTGGCGTTGCTGTGGACCGGTGGTCATCCGTCGAAAGAAGCGCAGTCTCTGCTGGAGCAGATTCGCC > NZ_CP009273/635349‑635548
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
