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 I2 R1
|
1624 |
250.6 |
12620048 |
98.0% |
12367647 |
93.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,041,654 |
G→A |
intergenic (+29/‑125) |
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 | 4,041,654 | 0 | G | A | 100.0%
| 144.3
/ NA
| 39 | intergenic (+29/‑125) | dsbA/b3861 | protein disulfide isomerase I/putative GTP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (2/37); total (2/37) |
ATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAG > NC_000913/4041564‑4041731
|
atatGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATa < 1:6037436/93‑1 (MQ=255)
atGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATAtt < 1:4640346/93‑1 (MQ=255)
atGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATAtt < 1:3122721/93‑1 (MQ=255)
tGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTc < 2:972788/93‑1 (MQ=255)
ggATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCa < 2:3330516/93‑1 (MQ=255)
ggATGTTTTTGTTCAGCAGTATGCTAATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCa < 1:4351893/93‑1 (MQ=255)
gATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCAc < 1:4452731/93‑1 (MQ=255)
gATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCAc < 2:3894978/93‑1 (MQ=255)
gATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCAc < 1:4318673/93‑1 (MQ=255)
gATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCAc < 1:2717205/93‑1 (MQ=255)
aTGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACg < 2:3790714/93‑1 (MQ=255)
tGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACgg < 1:5975212/93‑1 (MQ=255)
gTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACggg < 1:2008946/93‑1 (MQ=255)
gTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACggg < 2:3128462/93‑1 (MQ=255)
gTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACggg < 2:2682431/93‑1 (MQ=255)
gTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACggg < 2:3007566/93‑1 (MQ=255)
tttttGTTCAGCATTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 2:397566/93‑1 (MQ=255)
tttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 1:4316903/93‑1 (MQ=255)
tttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGc < 1:5189173/93‑1 (MQ=255)
ttttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑t < 1:2797518/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 2:5120678/93‑1 (MQ=255)
tttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tt < 2:5621573/93‑1 (MQ=255)
ttGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttt < 1:4998122/93‑1 (MQ=255)
tGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttt < 1:1502054/93‑1 (MQ=255)
tGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttt < 1:4874417/93‑1 (MQ=255)
tGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttt < 1:1151180/93‑1 (MQ=255)
ttCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttt < 2:2781720/93‑1 (MQ=255)
cagcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑ttttttta < 2:3762985/93‑3 (MQ=255)
agcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttat < 2:2956433/93‑4 (MQ=255)
agcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttat < 2:3124691/93‑4 (MQ=255)
gcagTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑tttttttatt < 2:2722909/93‑5 (MQ=255)
agTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTtattat < 2:223067/93‑1 (MQ=255)
agTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTtattat < 1:6115284/93‑1 (MQ=255)
agTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTtattat < 2:691205/93‑1 (MQ=255)
gTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTattatt > 1:1772352/1‑93 (MQ=255)
aTGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTta < 1:16196/93‑1 (MQ=255)
aTGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTta < 2:73563/93‑1 (MQ=255)
gCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTtaat < 2:1147277/93‑1 (MQ=255)
cATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAg > 1:3433182/1‑93 (MQ=255)
|
ATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAG > NC_000913/4041564‑4041731
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ 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
CAATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAG > NC_000913/4041562‑4041731
|
CAATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCTAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAAT < SRR4302533.2944000/94‑1 (MQ=60)
AATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATA < SRR4302533.843863/94‑1 (MQ=60)
AATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATA < SRR4302533.3701151/94‑1 (MQ=60)
AATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATA < SRR4302533.1901341/94‑1 (MQ=60)
ATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATAT < SRR4302533.6074023/94‑1 (MQ=60)
ATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTC < SRR4302533.4668462/94‑1 (MQ=60)
ATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTC < SRR4302533.3141919/94‑1 (MQ=60)
GGATGTTTTTGTTCAGCAGTATGCTAATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCAC < SRR4302533.4378153/94‑1 (MQ=60)
GATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACG < SRR4302533.2733887/94‑1 (MQ=60)
GATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACG < SRR4302533.4344684/94‑1 (MQ=60)
GATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACG < SRR4302533.4479653/94‑1 (MQ=60)
TGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGG < SRR4302533.6011383/94‑1 (MQ=60)
GTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC < SRR4302533.2021320/94‑1 (MQ=60)
TTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑T < SRR4302533.5220487/94‑1 (MQ=60)
TTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑T < SRR4302533.4342898/94‑1 (MQ=60)
TTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TT < SRR4302533.2814723/94‑1 (MQ=60)
TTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TTTT < SRR4302533.5028422/94‑1 (MQ=60)
TGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TTTTT < SRR4302533.1511109/94‑1 (MQ=60)
TGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TTTTT < SRR4302533.4903951/94‑1 (MQ=60)
TGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGC‑TTTTT < SRR4302533.1158076/94‑1 (MQ=60)
AGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATT > SRR4302533.1783144/1‑94 (MQ=60)
AGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATT < SRR4302533.6152180/94‑1 (MQ=60)
ATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAA < SRR4302533.16311/94‑1 (MQ=60)
tttgttttagttttatttctgtggggggaaggggggggCAATGTAAATTACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATA < SRR4302533.3962403/56‑1 (MQ=60)
ACATAAAGCCCGTGAATATTCACGGGCTTTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAG > SRR4302533.3454392/1‑94 (MQ=60)
|
CAATATGGATGTTTTTGTTCAGCAGTATGCTGATACAGTGAAATATCTGTCCGAGAAAAAATAATTCAATGTAAATTACATAAAGCCCGTGAGTATTCACGGGC‑TTTTTTATTATTTAATAAATATAAATACATTCTGATAATGCATCCTGCCGCTGGACATTATTTCAG > NC_000913/4041562‑4041731
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
