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 I95 R1
|
196 |
14.2 |
808436 |
96.0% |
776098 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,896,621 |
A→G |
D147D (GAT→GAC) |
bglB ← |
6‑phospho‑beta‑glucosidase BglB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,896,621 | 0 | A | G | 100.0%
| 52.5
/ NA
| 17 | D147D (GAT→GAC) | bglB | 6‑phospho‑beta‑glucosidase BglB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (14/3); total (14/3) |
TGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAAC > NZ_CP009273/3896539‑3896693
|
tGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGa > 1:211018/1‑90 (MQ=255)
cATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGAt > 1:164652/1‑90 (MQ=255)
cATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGAt < 1:167279/90‑1 (MQ=255)
cATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGAt > 1:131443/1‑90 (MQ=255)
ttAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGc > 2:348509/1‑83 (MQ=255)
ttAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGc < 1:348509/83‑1 (MQ=255)
cACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGttttt > 2:45720/1‑90 (MQ=255)
cACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGttttt > 2:385341/1‑90 (MQ=255)
ttATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCAcc > 1:69511/1‑90 (MQ=255)
ggTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCat > 1:41830/1‑90 (MQ=255)
ggTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCat > 2:402748/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:2586/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:302241/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 1:259495/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 1:175417/1‑90 (MQ=255)
gggCATAATGC‑CGAAGTGGGTCGGGGCCCGCTCAATAACCCAAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATa < 1:402748/90‑1 (MQ=255)
gCGTAATGCTCGAAGT‑GGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAAc > 1:25913/1‑90 (MQ=255)
|
TGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGT‑GATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAAC > NZ_CP009273/3896539‑3896693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ 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
TGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > NZ_CP009273/3896529‑3896720
|
TGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGA > SRR3722235.213627/1‑100 (MQ=60)
gcctcttgtctcgtgggctcggagatgtgtataagagacagACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGAC < SRR3722235.305514/59‑1 (MQ=60)
ATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAT > SRR3722235.132969/1‑100 (MQ=60)
ATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAT > SRR3722235.166550/1‑100 (MQ=60)
GATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCC < SRR3722235.353530/100‑1 (MQ=60)
CATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACC < SRR3722235.169201/100‑1 (MQ=60)
TAACCCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACC > SRR3722235.70300/1‑100 (MQ=60)
ACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCAT > SRR3722235.42292/1‑100 (MQ=60)
tttttTTGGTAGCGAGAAAAGCCCGGGGGGGCGTAATGCTCGAGGGGGTCGAGGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCACCAGCCCATATG < SRR3722235.317579/95‑1 (MQ=44)
tttaaaagagaaagagaaaagcccggggGGGCGTAATGCTCGAAGTGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCACCAGCCCATATG < SRR3722235.213061/72‑1 (MQ=60)
gatgtttaaaagagaccgccggggGGGCGTAATGCTAGAAGGGGTCGATGCCCGCCCGATTACCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCAT < SRR3722235.375779/76‑1 (MQ=56)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3722235.262918/1‑100 (MQ=60)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3722235.177431/1‑100 (MQ=60)
GTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCtgtctcttatacacatctccgagcccacgagacaagaggcaatatcgtatgccgtctt > SRR3722235.272165/1‑42 (MQ=60)
GACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAAC > SRR3722235.26212/1‑100 (MQ=60)
GTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > SRR3722235.26156/1‑100 (MQ=60)
GTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > SRR3722235.108902/1‑100 (MQ=60)
|
TGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > NZ_CP009273/3896529‑3896720
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
