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 I122 R1
|
193 |
20.9 |
1228102 |
94.7% |
1163012 |
84.0 |
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%
| 82.5
/ NA
| 25 | D147D (GAT→GAC) | bglB | 6‑phospho‑beta‑glucosidase BglB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (19/6); total (19/6) |
TGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAG > NZ_CP009273/3896539‑3896701
|
tGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGa > 1:34273/1‑90 (MQ=255)
gATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑c < 2:570307/90‑1 (MQ=255)
aTTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑Ct < 2:11845/90‑1 (MQ=255)
tttCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTc > 1:261945/1‑90 (MQ=255)
tCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGa > 2:487133/1‑90 (MQ=255)
aCTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTc > 1:566713/1‑90 (MQ=255)
gTTGGTAGGGAGAAAAGCCCGGGGGGGCGTAATGCTCGAAGGGGTCGATGCCCG‑CTCGATTACCCAAACCGCCGTAGTTTTTCACCAGcc < 1:96867/90‑1 (MQ=255)
ggTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCat > 2:505103/1‑90 (MQ=255)
ggTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCat > 1:551186/1‑90 (MQ=255)
gTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCata > 2:307468/1‑90 (MQ=255)
gTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCata > 2:194409/1‑90 (MQ=255)
cgcGTGCGGGCGTAATGCGCGAAGTGGTCGA‑GAGCGCCTCCATGCCCCCACCCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTaa < 2:280225/88‑1 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCAttt > 1:141278/1‑82 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCAttt < 2:141278/82‑1 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:211432/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:21684/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:230872/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 1:509149/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 1:490375/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 1:117197/1‑90 (MQ=255)
gTGCGGGCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATgg > 2:74776/1‑90 (MQ=255)
gCGTAATGCTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAAc > 1:41345/1‑90 (MQ=255)
cTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAg > 2:163466/1‑90 (MQ=255)
cTCGAAGTGGTCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAg > 2:296532/1‑90 (MQ=255)
cTCGAAGGGGTCGATGCCCG‑CTCTATTACCCAAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAg < 1:174792/90‑1 (MQ=255)
|
TGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCG‑CTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAG > NZ_CP009273/3896539‑3896701
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ 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
TGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGATCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > NZ_CP009273/3896529‑3896720
|
TGTAACGACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGA > SRR3721989.34865/1‑100 (MQ=60)
agagacagATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGAC < SRR3721989.321118/92‑1 (MQ=60)
GACATGTTGATTTCATTAAACGTCAGCCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTC > SRR3721989.266601/1‑100 (MQ=60)
tacactccttacgtcgtcggcagcgtcagatgtgtataagagacagAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGAT < SRR3721989.482491/54‑1 (MQ=60)
CCATAACGCCACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTC > SRR3721989.579009/1‑100 (MQ=60)
ACTTTATGTTGGTAGCGAGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCAT > SRR3721989.563110/1‑100 (MQ=60)
aagagacaggagaaaagcccggGCGGGCGTAATGCTCGAGGGGGTCGATGCCCGCTCGATTACCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCAT < SRR3721989.411718/78‑1 (MQ=60)
GTTGGTAGGGAGAAAAGCCCGGGGGGGCGTAATGCTCGAAGGGGTCGATGCCCGCTCGATTACCCAAACCGCCGTAGTTTTTCACCAGCCCATATGGCAT < SRR3721989.98620/100‑1 (MQ=54)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3721989.119343/1‑100 (MQ=60)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3721989.143846/1‑100 (MQ=60)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3721989.500739/1‑100 (MQ=60)
AGTAAAGACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGG > SRR3721989.520007/1‑100 (MQ=60)
GACCGTGCGGGCGTAATGCTCGAAGTGGTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAAC > SRR3721989.42053/1‑100 (MQ=60)
CTCGAAGGGGTCGATGCCCGCTCTATTACCCAAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATC < SRR3721989.177993/100‑1 (MQ=60)
GTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > SRR3721989.370129/1‑100 (MQ=60)
GTCGATGACCGCTCGATTAGCCCAACCGCCGTAGTTTTTCACCAGCCCATATGGCATTTCGTAATGGGATAACGTTACCAGCGGCTTGATCCCCGCCTGC > SRR3721989.485400/1‑100 (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 < 25 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
