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 |
4,210,075 |
T→C |
F518L (TTT→CTT) |
aceK → |
bifunctional isocitrate dehydrogenase kinase/phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,210,075 | 0 | T | C | 100.0%
| 104.5
/ NA
| 29 | F518L (TTT→CTT) | aceK | bifunctional isocitrate dehydrogenase kinase/phosphatase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/19); total (10/19) |
GACATCCCGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGTTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGGCG > NZ_CP009273/4209988‑4210160
|
gACATCCCGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGctt > 2:38890/1‑90 (MQ=255)
cccctCCCGCCGCCGCGCCCCCCGGAAGTTTACCTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGctt < 1:375015/86‑1 (MQ=255)
cgccgccgcGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACt < 1:133014/90‑1 (MQ=255)
cgccgccgcGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACt < 2:311141/90‑1 (MQ=255)
tATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGcc < 1:156635/90‑1 (MQ=255)
cGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGAcc < 2:268200/90‑1 (MQ=255)
cGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGAcc < 1:513570/90‑1 (MQ=255)
gAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCcg < 2:89864/90‑1 (MQ=255)
gACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGt > 2:602039/1‑90 (MQ=255)
cGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACt < 2:176235/68‑1 (MQ=255)
cGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACt > 1:176235/1‑68 (MQ=255)
cGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGAcc < 1:519735/83‑1 (MQ=255)
cGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGAcc > 2:519735/1‑83 (MQ=255)
cGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTAt > 2:518112/1‑90 (MQ=255)
ccAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGc < 1:452640/90‑1 (MQ=255)
gCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGt > 2:399619/1‑90 (MQ=255)
tACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATg < 1:62846/90‑1 (MQ=255)
tACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATg < 2:421046/90‑1 (MQ=255)
gCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGc < 2:267555/72‑1 (MQ=255)
gCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGc > 1:267555/1‑72 (MQ=255)
cGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGc < 2:58811/90‑1 (MQ=255)
cGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGc < 2:182325/90‑1 (MQ=255)
gTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGcc > 1:116027/1‑90 (MQ=255)
gTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGcc > 2:603171/1‑90 (MQ=255)
ctcGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGAcc > 1:14414/1‑53 (MQ=255)
ctcGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGAcc < 2:14414/53‑1 (MQ=255)
tcGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGc < 2:289894/86‑1 (MQ=255)
tcGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGc > 1:289894/1‑86 (MQ=255)
cGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCATATTGGTCCGCTGTTTGAAGAGATGCACGCCGAcc < 1:496315/90‑1 (MQ=255)
tGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCgcgc < 1:602039/90‑1 (MQ=255)
agagCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGgcg < 1:586724/90‑1 (MQ=255)
|
GACATCCCGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGTTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGGCG > NZ_CP009273/4209988‑4210160
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ 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
TTCCGCGACATCCCGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGTTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGGCGCGCACTACAAAAC > NZ_CP009273/4209982‑4210173
|
agatctacactccttacgtcgtcggcagcgtcagatgtgtataagagacagCCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCC < SRR3721989.398090/49‑1 (MQ=60)
CCGCGACATCCCGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCAC < SRR3721989.425765/100‑1 (MQ=60)
cccctcccgccgccgcgccccccggaagtttacCTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGC < SRR3721989.382436/67‑1 (MQ=60)
CGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGC < SRR3721989.135445/100‑1 (MQ=60)
TATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTA < SRR3721989.159477/100‑1 (MQ=60)
ATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCtgtctcttata > SRR3721989.179459/1‑89 (MQ=60)
CGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGG < SRR3721989.524533/100‑1 (MQ=60)
CGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGG < SRR3721989.530841/100‑1 (MQ=60)
CCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGA < SRR3721989.462104/100‑1 (MQ=60)
CCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGActgtctct > SRR3721989.272307/1‑92 (MQ=60)
GTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCC > SRR3721989.118150/1‑100 (MQ=60)
GGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGctgtctcttatacacatctgacgctgc > SRR3721989.14678/1‑73 (MQ=60)
GTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGAC > SRR3721989.295249/1‑100 (MQ=60)
TACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACC < SRR3721989.63954/100‑1 (MQ=60)
CGCCGGGCGATGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCATATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGC < SRR3721989.506834/100‑1 (MQ=60)
TGTTTTCCCGGAAGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGG < SRR3721989.615120/100‑1 (MQ=60)
AGAGCTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGGCGCGCACTACAA < SRR3721989.599485/100‑1 (MQ=60)
GCTTCGCCACTGGCTATGCGCCGCCCCGCGTATTGGTCCGCTGTTTGAAGAGATGCCCGCCGACCTGTTCCGCGCTGATTACTGGCGCGCACTACAAAAC < SRR3721989.575532/100‑1 (MQ=60)
|
TTCCGCGACATCCCGCCGCCGCGCTATCCGGAAGACGAACTTGCCAGCGAACCGTGGTACAGCGTCTCGCCGGGCGATGTTTTCCCGGAAGAGTTTCGCCACTGGCTATGCGCCGACCCGCGTATTGGTCCGCTGTTTGAAGAGATGCACGCCGACCTGTTCCGCGCTGATTACTGGCGCGCACTACAAAAC > NZ_CP009273/4209982‑4210173
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
