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 |
3,918,222 |
T→G |
N258H (AAC→CAC) |
mnmG ← |
tRNA uridine‑5‑carboxymethylaminomethyl(34) synthesis enzyme MnmG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,918,222 | 0 | T | G | 100.0%
| 131.5
/ NA
| 37 | N258H (AAC→CAC) | mnmG | tRNA uridine‑5‑carboxymethylaminomethyl(34) synthesis enzyme MnmG |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (20/17); total (20/17) |
CGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTTACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACGCATTGCCCAT > NZ_CP009273/3918153‑3918306
|
cgatcgaCGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATc > 2:389377/1‑80 (MQ=255)
cgatcgaCGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATc < 1:389377/80‑1 (MQ=255)
cgatcgaCGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATggg > 1:127987/1‑90 (MQ=255)
gaCGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTtc > 1:246701/1‑90 (MQ=255)
gaCGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTtc > 1:472184/1‑90 (MQ=255)
gaCGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTtc < 1:599997/90‑1 (MQ=255)
ggCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGt < 2:41524/90‑1 (MQ=255)
tAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTa < 2:440214/90‑1 (MQ=255)
tAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTa < 1:190723/90‑1 (MQ=255)
tAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTa < 2:332238/90‑1 (MQ=255)
tAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTa < 2:246701/90‑1 (MQ=255)
gCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATg > 2:186503/1‑90 (MQ=255)
tGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGt < 2:529671/90‑1 (MQ=255)
tGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGt < 2:396552/90‑1 (MQ=255)
gggCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTg > 1:124462/1‑90 (MQ=255)
ggCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGa > 1:291051/1‑90 (MQ=255)
acacCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATc < 1:267250/54‑1 (MQ=255)
acacCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATc > 2:267250/1‑54 (MQ=255)
ttCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGt > 2:4419/1‑68 (MQ=255)
ttCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGt < 1:4419/68‑1 (MQ=255)
gtccaTCACCCCTGCGTTTTTTGTTCTCCGATCGAGGTGACTGCGGATCACATAATTCCGTTTCTCGTTGGTATGAGTGATATACCACgg > 1:175257/5‑90 (MQ=255)
aCCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACctgc < 1:2142/90‑1 (MQ=255)
ccccTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATg < 2:448180/49‑1 (MQ=255)
ccccTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATg > 1:448180/1‑49 (MQ=255)
cccTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACctgctg < 2:291051/90‑1 (MQ=255)
cTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTtct < 1:476102/54‑1 (MQ=255)
cTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTtct > 2:476102/1‑54 (MQ=255)
tGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTgggg < 2:243448/90‑1 (MQ=255)
gCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGa > 2:460469/1‑90 (MQ=255)
gCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGa > 1:56016/1‑90 (MQ=255)
cGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGAt > 2:310359/1‑90 (MQ=255)
cATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTg > 1:594671/1‑90 (MQ=255)
cATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTg > 2:136486/1‑90 (MQ=255)
ggCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACg > 1:81868/1‑90 (MQ=255)
tACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACGCAt < 2:212416/90‑1 (MQ=255)
cGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACGCATTGCCCa > 2:147465/1‑90 (MQ=255)
gAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACGCATTGCCCAt > 2:122754/1‑90 (MQ=255)
|
CGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTTACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACGCATTGCCCAT > NZ_CP009273/3918153‑3918306
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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
ACTTTGTCTTCGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTTACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACG > NZ_CP009273/3918143‑3918296
|
cagcgtcagatgtgtataagagacagGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGG < SRR3721989.271993/74‑1 (MQ=60)
ACTTTGTCTTCGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGG > SRR3721989.130334/1‑100 (MQ=60)
ACTTTGTCTTCGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGG < SRR3721989.397233/100‑1 (MQ=60)
gagatctacactccttacgtcgtcggcagcgtcagatgtgtataagagacagTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGT < SRR3721989.281700/48‑1 (MQ=60)
GTCTTCGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTC > SRR3721989.251095/1‑100 (MQ=60)
GTCTTCGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTC > SRR3721989.482111/1‑100 (MQ=60)
GACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTAT < SRR3721989.613032/100‑1 (MQ=60)
cagcgtcagatgtgtataagagacagTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATG < SRR3721989.486127/74‑1 (MQ=60)
tataagagacaGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGT < SRR3721989.4497/89‑1 (MQ=60)
GCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTG > SRR3721989.126743/1‑100 (MQ=60)
CAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGA > SRR3721989.296430/1‑100 (MQ=60)
TAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATAT < SRR3721989.194214/100‑1 (MQ=60)
CCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGctgtctcttatacacatctgacgctgccgac > SRR3721989.457534/1‑69 (MQ=60)
tcgtcggcagcgtcagatgtgtataagagacaGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGG < SRR3721989.93619/68‑1 (MQ=60)
GATCACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGA > SRR3721989.56996/1‑100 (MQ=60)
ACCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCT < SRR3721989.2180/100‑1 (MQ=60)
CCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCctgtctcttatacacatctgacgctgccgacgacgtaaggagtgtagatctcggggggcgccgt > SRR3721989.26941/1‑36 (MQ=60)
CCCCTGCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTG > SRR3721989.607596/1‑100 (MQ=60)
GCGTACATTGGGCTACGATCGAGGTGACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACG > SRR3721989.83331/1‑100 (MQ=60)
|
ACTTTGTCTTCGATCGACGGGCAGTAGCGTGGGCCGACACCTTCGATCACCCCTGCGTACATTGGGCTACGATCGAGGTTACTGCGGATCACATCATGGGTTTTCTCGTTGGTATGAGTGATATAACACGGCACCTGCTGGGGATGCTGGGACG > NZ_CP009273/3918143‑3918296
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
