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 F1 I1 R1
|
744 |
338.8 |
17650688 |
97.8% |
17262372 |
93.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,041,671 |
(T)6→7 |
intergenic (+46/‑108) |
dsbA → / → b3861 |
protein disulfide isomerase I/putative GTP‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,041,665 | 1 | . | T | 100.0%
| 45.4
/ NA
| 14 | intergenic (+40/‑114) | dsbA/b3861 | protein disulfide isomerase I/putative GTP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base T (8/6); total (8/6) |
TTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTCAAAGTT > NC_000913/4041573‑4041752
|
tttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 1:7599360/93‑1 (MQ=255)
tttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 2:8472223/93‑1 (MQ=255)
tttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 2:4374981/93‑1 (MQ=255)
tttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 2:4374980/93‑1 (MQ=255)
ttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑t < 2:7868267/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 1:4297784/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 2:6497413/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 2:6108315/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 1:2293569/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 2:3656956/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 2:2515707/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:1112310/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:3479754/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:4189169/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 2:6167099/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:5352179/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:1140353/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:6868474/93‑1 (MQ=255)
ttGTTCAGCAGTAGGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAAGTCAATGTAAATTACATAAAGCCCGTGAATATTCCCGGGC‑ttt < 1:3479753/93‑1 (MQ=255)
tGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttt < 2:1391884/93‑1 (MQ=255)
gTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttttt < 1:4880886/93‑1 (MQ=255)
tCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttttttt < 2:1119032/93‑2 (MQ=255)
cagcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttttttta < 1:8138841/93‑3 (MQ=255)
cagcagTATGATGATACAGTGAAATATCTGTCTGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCCCGGGC‑ttttttta < 2:6367527/93‑3 (MQ=255)
gcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttatt < 1:6661332/93‑5 (MQ=255)
gcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttatt < 1:5649487/93‑5 (MQ=255)
gcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttatt < 2:2784316/93‑5 (MQ=255)
gcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttatt < 2:3404192/93‑5 (MQ=255)
gcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttatt < 2:364916/93‑5 (MQ=255)
gTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTattatt < 1:4726437/93‑1 (MQ=255)
gTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTattatt < 2:1023394/93‑1 (MQ=255)
tATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTAttt > 1:3442299/1‑93 (MQ=255)
aTGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTta < 1:6202015/93‑1 (MQ=255)
cTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTtaata < 1:1056587/93‑1 (MQ=255)
cGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAAt > 1:5810196/1‑93 (MQ=255)
aaaaaaTAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCAt > 1:5628394/1‑93 (MQ=255)
aaaaTAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATcc < 1:50484/93‑1 (MQ=255)
atTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGc > 2:4989555/1‑93 (MQ=255)
ttCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCt > 1:7386408/1‑93 (MQ=255)
aaTTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACattat < 1:4061095/93‑1 (MQ=255)
tGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGat > 2:4216208/1‑93 (MQ=255)
tATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTc > 2:2432782/1‑93 (MQ=255)
cGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTCAAAGtt > 1:8769106/1‑93 (MQ=255)
|
TTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTCAAAGTT > NC_000913/4041573‑4041752
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ 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
GTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTCAAAGTT > NC_000913/4041578‑4041752
|
GTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TTTTTT < SRR4302541.4930699/94‑1 (MQ=60)
CAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TTTTTTtat < SRR4302541.8227898/94‑4 (MQ=60)
GCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTA < SRR4302541.6729678/94‑1 (MQ=60)
GCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTA < SRR4302541.5707208/94‑1 (MQ=60)
CAGTATGCTGATACAGTGAAATATCTGTGCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTAT < SRR4302541.1029515/94‑1 (MQ=60)
CAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTAT < SRR4302541.4197051/94‑1 (MQ=60)
CAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTAT < SRR4302541.6148162/94‑1 (MQ=60)
GTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTT > SRR4302541.3476697/1‑94 (MQ=60)
GTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTT < SRR4302541.4774642/94‑1 (MQ=60)
ATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAA < SRR4302541.6265391/94‑1 (MQ=60)
CTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAA < SRR4302541.1066404/94‑1 (MQ=60)
CCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAAT > SRR4302541.5869227/1‑94 (MQ=60)
GAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCAT > SRR4302541.5685972/1‑94 (MQ=60)
AAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCT < SRR4302541.50872/94‑1 (MQ=60)
ATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCT > SRR4302541.7465389/1‑94 (MQ=60)
AATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATT < SRR4302541.4101167/94‑1 (MQ=60)
ACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTCAAAGTT > SRR4302541.8862858/1‑94 (MQ=60)
|
GTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAGCATAAGTGGATATTCAAAGTT > NC_000913/4041578‑4041752
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
