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 |
2,751,237 |
A→G |
V241V (GTT→GTC) |
BW25113_RS13685 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,751,237 | 0 | A | G | 100.0%
| 47.0
/ NA
| 14 | V241V (GTT→GTC) | BW25113_RS13685 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/8); total (6/8) |
CAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTC > NZ_CP009273/2751152‑2751312
|
cAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACag < 2:91666/90‑1 (MQ=255)
aaaCTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACaga < 1:243559/90‑1 (MQ=255)
ttGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAg > 2:333902/1‑90 (MQ=255)
tGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGc < 2:327405/90‑1 (MQ=255)
cATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTc < 2:194829/90‑1 (MQ=255)
ggTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGa > 1:25734/1‑90 (MQ=255)
ggTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGa < 1:272011/90‑1 (MQ=255)
tAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGatat < 1:100887/90‑1 (MQ=255)
gTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGt > 2:359715/1‑90 (MQ=255)
ttCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTa > 1:335759/1‑90 (MQ=255)
tGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCgc > 1:75762/1‑90 (MQ=255)
tGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCgc > 2:121108/1‑90 (MQ=255)
ttATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTg < 2:186932/90‑1 (MQ=255)
cACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCcttc < 1:121108/90‑1 (MQ=255)
|
CAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTC > NZ_CP009273/2751152‑2751312
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GATTATTTATCTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCTG > NZ_CP009273/2751140‑2751330
|
GATTATTTATCTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGAC < SRR3722090.140583/100‑1 (MQ=60)
AAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATT < SRR3722090.246477/100‑1 (MQ=60)
ATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGA > SRR3722090.25997/1‑100 (MQ=60)
agatgctcaggagtctcgtgggctcggagatgtgtataagagacagCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATAT < SRR3722090.120855/54‑1 (MQ=60)
GGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGT < SRR3722090.275381/100‑1 (MQ=60)
GTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTA > SRR3722090.340135/1‑100 (MQ=60)
TAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTC < SRR3722090.101977/100‑1 (MQ=60)
GTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGC > SRR3722090.76597/1‑100 (MQ=60)
ACCTTATTTTTCCACCCATCATTCGGGACAGAGTCATTAATctgtctcttatacacatctccgagcccacgagactcctgagcatctcgtatgccgtctt > SRR3722090.184858/1‑41 (MQ=60)
CACCCATCATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCAC < SRR3722090.122396/100‑1 (MQ=60)
ATTCGGGACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCTG > SRR3722090.351351/1‑100 (MQ=60)
|
GATTATTTATCTCAAACTCTGACATTTGAATAAAATCCCATAGCGGTTCGATAAGTTCATTAACTGCTACAACCTTATTTTTCCACCCATCATTCGGAACAGAGTCATTAATTAGCTCAACCAACTTCAGTTGAATGATATGGTACACTTCCGCTTTGCTTTTGCCACCCTTCTTTCCTGCACTCCGCCTG > NZ_CP009273/2751140‑2751330
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
