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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,434,529 |
A→C |
F186V (TTT→GTT) |
fabB ← |
beta‑ketoacyl‑ACP synthase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,434,529 | 0 | A | C | 100.0%
| 86.0
/ NA
| 27 | F186V (TTT→GTT) | fabB | beta‑ketoacyl‑ACP synthase I |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (10/17); total (10/17) |
ATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAG > NZ_CP009273/2434454‑2434614
|
aTTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGtt > 2:483101/1‑90 (MQ=255)
tagtagACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGc > 1:491439/1‑90 (MQ=255)
agtagACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGcc < 2:457748/90‑1 (MQ=255)
gACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTc < 1:134985/77‑1 (MQ=255)
gACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTc > 2:134985/1‑77 (MQ=255)
cAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTg > 1:526102/1‑90 (MQ=255)
gcgcACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGa > 1:425705/1‑90 (MQ=255)
gcgcACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGa < 2:395234/90‑1 (MQ=255)
cccATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGc < 2:151818/90‑1 (MQ=255)
cGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGt > 2:55241/1‑90 (MQ=255)
gAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 2:526102/90‑1 (MQ=255)
gAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 2:491439/90‑1 (MQ=255)
gAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 1:478301/90‑1 (MQ=255)
gAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 2:110364/90‑1 (MQ=255)
gAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 2:218627/90‑1 (MQ=255)
aaGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATAc < 1:363263/90‑1 (MQ=255)
aaGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATAc < 2:319974/90‑1 (MQ=255)
gCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAg < 1:343923/90‑1 (MQ=255)
gCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAg < 1:301497/90‑1 (MQ=255)
gCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGcc < 2:559389/40‑1 (MQ=255)
gCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGcc > 1:559389/1‑40 (MQ=38)
gCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGcac > 1:531498/1‑90 (MQ=255)
gCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGcac > 1:361064/1‑90 (MQ=255)
tCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACAcgcg < 1:564273/90‑1 (MQ=255)
tCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACAcgcg > 1:380591/1‑90 (MQ=255)
cAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATgg < 1:202779/90‑1 (MQ=255)
gCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGag < 1:124752/90‑1 (MQ=255)
|
ATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAG > NZ_CP009273/2434454‑2434614
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
AGGCTTTTTCCGGGGTGTCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAGTAGTTAACGC > NZ_CP009273/2434430‑2434624
|
AGGCTTTTTCCGGGGTGTCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAC < SRR3722109.27073/100‑1 (MQ=60)
GGCTTTTTCCGGGGTGTCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACC > SRR3722109.569762/1‑100 (MQ=60)
TCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGC > SRR3722109.498849/1‑100 (MQ=60)
cagGTATTTAGTAGACAGCGCCCCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCC < SRR3722109.136652/97‑1 (MQ=60)
ATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTG > SRR3722109.534118/1‑100 (MQ=60)
TTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGA > SRR3722109.431965/1‑100 (MQ=60)
CAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCctgtctcttatacacatctgacgc > SRR3722109.369963/1‑76 (MQ=60)
GAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAG < SRR3722109.485509/100‑1 (MQ=60)
AAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGA < SRR3722109.368311/100‑1 (MQ=60)
GCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAG < SRR3722109.305407/100‑1 (MQ=60)
GCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAG < SRR3722109.348509/100‑1 (MQ=60)
TCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCctgtctcttatacacatctgacgctgccgacgaatgtcaa > SRR3722109.567870/1‑60 (MQ=60)
TCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCAC > SRR3722109.366054/1‑100 (MQ=60)
TCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCAC > SRR3722109.539591/1‑100 (MQ=60)
GCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCG > SRR3722109.385998/1‑100 (MQ=60)
TCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGG < SRR3722109.572837/100‑1 (MQ=60)
CAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAGTAGTTAAC < SRR3722109.205242/100‑1 (MQ=60)
GCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAGTAGTTAACGC < SRR3722109.126289/100‑1 (MQ=60)
|
AGGCTTTTTCCGGGGTGTCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAGTAGTTAACGC > NZ_CP009273/2434430‑2434624
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
