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 I208 R1
|
222 |
13.1 |
731276 |
96.6% |
706412 |
85.9 |
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%
| 47.3
/ NA
| 14 | F186V (TTT→GTT) | fabB | beta‑ketoacyl‑ACP synthase I |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (4/10); total (4/10) |
TGTCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGA > NZ_CP009273/2434445‑2434604
|
tgtCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGa < 2:306977/90‑1 (MQ=255)
gTTGTATTTAGTAGACAGCGCCCCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTc < 1:356751/90‑1 (MQ=255)
cATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGctc > 2:136926/1‑90 (MQ=255)
cGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGt > 2:326796/1‑90 (MQ=255)
gAATTCGCAACCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 1:302841/90‑1 (MQ=255)
aaGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATAc < 1:250606/90‑1 (MQ=255)
aaGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATAc < 1:88659/90‑1 (MQ=255)
gCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGcac > 1:14559/1‑90 (MQ=255)
ttCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACAcgc < 1:135772/90‑1 (MQ=255)
ttCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACAcgc < 1:326796/90‑1 (MQ=255)
cgccgccgcCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCgg < 2:219718/90‑1 (MQ=255)
gccgccgccAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGa < 1:59220/90‑1 (MQ=255)
ccgccgccAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt > 1:62224/1‑56 (MQ=255)
ccgccgccAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGtt < 2:62224/56‑1 (MQ=255)
|
TGTCGTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGA > NZ_CP009273/2434445‑2434604
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ 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
GTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAG > NZ_CP009273/2434449‑2434614
|
GTTGTATTTAGTAGACAGCGCCCCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCC < SRR3722090.361399/100‑1 (MQ=60)
GAATTCGCAACCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAG < SRR3722090.306698/100‑1 (MQ=60)
AAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGA < SRR3722090.253640/100‑1 (MQ=60)
AAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGA < SRR3722090.89628/100‑1 (MQ=60)
TCCCAGCACAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCAC > SRR3722090.14716/1‑100 (MQ=60)
CAGCTCTTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGctgtctcttatacacatctccgag > SRR3722090.62893/1‑76 (MQ=60)
TTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATG < SRR3722090.137199/100‑1 (MQ=60)
TTCGCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATG < SRR3722090.331038/100‑1 (MQ=60)
GCCGCCGCCAGCAACCACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAG < SRR3722090.59859/100‑1 (MQ=60)
|
GTTGTATTTAGTAGACAGCGCACCCATTGCGTCGAATTCGCAAGCCATTTCCCAGCACAGCTCTTCGCCGCCGCCAGCAAACACGATGTCCTGTTTGCCCAGTTGGATCTGCTCTACTGCGTTACCGATACAGTGTGCGGAAGTCGCACACGCGGAGCTGATGGAG > NZ_CP009273/2434449‑2434614
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
