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 I230 R1
|
226 |
18.8 |
1048726 |
96.7% |
1014118 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,318,468 |
A→C |
A609A (GCT→GCG) |
ftsH ← |
ATP‑dependent zinc metalloprotease FtsH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,318,468 | 0 | A | C | 100.0%
| 75.1
/ NA
| 25 | A609A (GCT→GCG) | ftsH | ATP‑dependent zinc metalloprotease FtsH |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (14/11); total (14/11) |
GACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGAAGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCAT > NZ_CP009273/3318382‑3318553
|
gACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGAcgcg > 2:260546/1‑90 (MQ=255)
aTGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCt < 1:251061/90‑1 (MQ=255)
aTGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCt < 2:132365/90‑1 (MQ=255)
ggTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTgg > 1:305208/1‑90 (MQ=255)
gtTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGttc > 1:282203/1‑90 (MQ=255)
tACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGttctt > 1:287405/1‑90 (MQ=255)
cGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCa > 1:228458/1‑90 (MQ=255)
gggTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCAGTGTCGCCAGAATTGTTAGACGCGCCTGGGTCTTCCCAg > 2:179519/1‑90 (MQ=255)
ggTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGc > 1:132253/1‑90 (MQ=255)
ggTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGc > 1:341836/1‑90 (MQ=255)
ggTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGc > 2:36250/1‑90 (MQ=255)
ggTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGc > 2:370273/1‑90 (MQ=255)
cGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGc > 2:239268/1‑90 (MQ=255)
tACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCg > 2:372902/1‑90 (MQ=255)
cgGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACg < 2:132253/90‑1 (MQ=255)
gTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTa > 1:125724/1‑90 (MQ=255)
cGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACg < 1:464525/90‑1 (MQ=255)
cGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACg < 2:154046/90‑1 (MQ=255)
ggACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGt < 1:170460/90‑1 (MQ=255)
cTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGtc > 2:62509/1‑90 (MQ=255)
tGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTg < 2:160065/90‑1 (MQ=255)
aGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGAt < 1:99975/90‑1 (MQ=255)
aGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGAt < 1:505342/90‑1 (MQ=255)
aGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGAt < 2:452477/90‑1 (MQ=255)
gTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGtctc > 1:403706/1‑90 (MQ=255)
tAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCat < 1:239268/90‑1 (MQ=255)
|
GACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGAAGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCAT > NZ_CP009273/3318382‑3318553
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 32 ≤ 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
GCTCTGACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGAAGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCATATTTCATGAG > NZ_CP009273/3318377‑3318563
|
GCTCTGACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGG > SRR3722114.308462/1‑100 (MQ=60)
TCTGACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTT < SRR3722114.24745/100‑1 (MQ=60)
CTGACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTC > SRR3722114.285165/1‑100 (MQ=60)
CTGACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTC < SRR3722114.323044/100‑1 (MQ=60)
GACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTT > SRR3722114.290445/1‑100 (MQ=60)
ATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCC < SRR3722114.253534/100‑1 (MQ=60)
TGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCA > SRR3722114.230622/1‑100 (MQ=60)
GTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGC > SRR3722114.133626/1‑100 (MQ=60)
GTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGC > SRR3722114.345716/1‑100 (MQ=60)
GGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTA > SRR3722114.127041/1‑100 (MQ=60)
CGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGG < SRR3722114.470327/100‑1 (MQ=60)
GGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGT < SRR3722114.172155/100‑1 (MQ=60)
CGCCAGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTC > SRR3722114.408624/1‑100 (MQ=60)
tgtataagagacAGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCATAT < SRR3722114.12269/88‑1 (MQ=60)
AGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCATAT < SRR3722114.101027/100‑1 (MQ=60)
AGAATTGTTAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCATAT < SRR3722114.511674/100‑1 (MQ=60)
TAGACGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCATATTTCATGAG < SRR3722114.241551/100‑1 (MQ=60)
|
GCTCTGACATGGTGTTACCCGGGTTCGGCGTACGCGGTTCATCAACCGGACGAGGAGCCTTTGGACTACCATTGTCGCCAGAATTGTTAGAAGCGCCTGGTTCTTCCCAGCCCGCTGGCGGACGTACATCGCGACGTGCCATCAGGTCATCAATCTGCGGTGCGTCGATAGTCTCATATTTCATGAG > NZ_CP009273/3318377‑3318563
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
