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 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
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%
| 110.1
/ NA
| 33 | D147D (GAT→GAC) | bglB | 6‑phospho‑beta‑glucosidase BglB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (25/8); total (25/8) |
ATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTT > NZ_CP009273/3896538‑3896707
|
aTGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATg > 2:5895/1‑90 (MQ=255)
aTGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATg > 1:563141/1‑90 (MQ=255)
tGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGa > 1:789864/1‑90 (MQ=255)
ttGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGAcc > 2:406989/1‑90 (MQ=255)
ttCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCg > 1:774756/1‑90 (MQ=255)
tCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGa < 2:789864/90‑1 (MQ=255)
tCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGa < 1:758219/90‑1 (MQ=255)
cATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAt > 1:128097/1‑90 (MQ=255)
cATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAt > 1:847869/1‑90 (MQ=255)
tttATGTTGGAAGCGAGAAAAGCCCGGGGGGGCGTAATGCTCGAAGTGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCAc < 1:702141/90‑1 (MQ=255)
tttGTTGGTAGCGAAAAAAGCCCGGGCGGGCGTAATGCTCGAGGTGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCACCa < 1:41336/88‑1 (MQ=255)
tATGTTGGTAGCGAGAAAAGCCCGGGGGGGCGTAATGCTCGAAGTGGTCGATGCCCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCa < 1:303966/90‑1 (MQ=255)
ttGTTGGTGGCGAGAAAAGCCCGGGGGGGCGTAATGCTGGAGGGGGTCGATGCCCGCTCGATTACCCCACCCGCCGTAGTTTTTCACCAg < 2:40196/89‑1 (MQ=255)
ggTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCat > 1:562288/1‑90 (MQ=255)
ggTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCat > 2:37039/1‑90 (MQ=255)
gTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCata > 2:278154/1‑90 (MQ=255)
tAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCatat > 2:671375/1‑90 (MQ=255)
gAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCt > 1:575675/1‑47 (MQ=255)
gAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCt < 2:575675/47‑1 (MQ=255)
aaaGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTc > 1:449749/1‑90 (MQ=255)
cGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATg > 1:248978/1‑90 (MQ=255)
cGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATg > 2:317103/1‑90 (MQ=255)
cGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATg > 2:234377/1‑90 (MQ=255)
cGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATg > 1:542837/1‑90 (MQ=255)
cGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATg > 1:414873/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:122093/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:714217/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 1:338887/1‑90 (MQ=255)
tGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATggg > 2:278778/1‑90 (MQ=255)
tGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATggg > 2:208438/1‑90 (MQ=255)
tGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATggg > 2:116052/1‑90 (MQ=255)
tGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATggg > 2:640852/1‑90 (MQ=255)
gTGGTCGACGCCCGCTCGATCACCCCACCCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCtt < 2:550397/90‑1 (MQ=255)
|
ATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTT > NZ_CP009273/3896538‑3896707
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ 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
CGTGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACG > NZ_CP009273/3896527‑3896694
|
CGTGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGAT < SRR3722072.536217/100‑1 (MQ=60)
GTGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATG > SRR3722072.573239/1‑100 (MQ=60)
TGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGA > SRR3722072.803693/1‑100 (MQ=60)
GTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGAC < SRR3722072.261295/100‑1 (MQ=60)
ACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCG > SRR3722072.788363/1‑100 (MQ=60)
ATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAT > SRR3722072.862530/1‑100 (MQ=60)
ATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAT > SRR3722072.130415/1‑100 (MQ=60)
TCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAAC < SRR3722072.771595/100‑1 (MQ=60)
aaaaccccttTTTATTTTGGTAGGGAGAAAAGCCCGTGGGGGCGTAATGCTCGAAGTGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCAC < SRR3722072.791678/90‑1 (MQ=57)
ACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCAT > SRR3722072.572374/1‑100 (MQ=60)
TTTATGTTGGAAGCGAGAAAAGCCCGGGGGGGCGTAATGCTCGAAGTGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCACCAGCCCATAT < SRR3722072.714676/100‑1 (MQ=60)
TTTGTTGGTAGCGAAAAAAGCCCGGGCGGGCGTAATGCTCGAGGTGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCACCAGCCCATATGG < SRR3722072.42092/100‑1 (MQ=60)
TATGTTGGTAGCGAGAAAAGCCCGGGGGGGCGTAATGCTCGAAGTGGTCGATGCCCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGG < SRR3722072.309232/100‑1 (MQ=60)
TGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCctgtctcttatacacatctccgagcccacgaga > SRR3722072.585961/1‑67 (MQ=60)
GGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTC > SRR3722072.457983/1‑100 (MQ=60)
GAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATG > SRR3722072.552611/1‑100 (MQ=60)
GAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATG > SRR3722072.422381/1‑100 (MQ=60)
GAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATG > SRR3722072.253183/1‑100 (MQ=60)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3722072.344847/1‑100 (MQ=60)
cccggGCGGGCGTAATGCTCGAAGTGGTCAATCCCCGCTGGATTAGCCCACCCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACG < SRR3722072.656708/95‑1 (MQ=60)
|
CGTGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACG > NZ_CP009273/3896527‑3896694
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
