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 |
539,223 |
C→G |
A94P (GCC→CCC) |
allE ← |
(S)‑ureidoglycine aminohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 539,223 | 0 | C | G | 100.0%
| 24.3
/ NA
| 8 | A94P (GCC→CCC) | allE | (S)‑ureidoglycine aminohydrolase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base G (3/5); total (3/5) |
GGGCGTTAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGCAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTTGCCACCGTTTTGATG > NZ_CP009273/539136‑539304
|
gggCGTTAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAg < 1:348283/90‑1 (MQ=255)
ttAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGata > 2:351754/1‑90 (MQ=255)
cGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCaga < 1:23866/90‑1 (MQ=255)
gCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATACAg > 2:273020/1‑90 (MQ=255)
cTTTGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGa < 1:164147/90‑1 (MQ=255)
aaaTGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTgttggtt > 1:364012/1‑90 (MQ=255)
tGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTTGcc < 2:271992/90‑1 (MQ=255)
ggCTTTGGGAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTTGCCACCGTTTTGATg < 2:296671/90‑1 (MQ=255)
|
GGGCGTTAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGCAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTTGCCACCGTTTTGATG > NZ_CP009273/539136‑539304
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ 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
GGGCGTTAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGCAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTT > NZ_CP009273/539136‑539289
|
GGGCGTTAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCC < SRR3722090.352816/100‑1 (MQ=60)
CGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATAC < SRR3722090.24117/100‑1 (MQ=60)
CTTTGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTG < SRR3722090.165819/100‑1 (MQ=60)
CGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGGAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTT > SRR3722090.368769/1‑100 (MQ=60)
|
GGGCGTTAACAAACGTCATTAAGGAGCCTGGCGGGCAATAAAGATAGCCACCTTCGCTTAAGGCAAATGTTTTGCCTTCGGCTTTGGCAGTGATATTTCCAGAGATCACATACAGGAACGTTTCAATGCCTTCGCCACCGAAGCCCTGTTGGTT > NZ_CP009273/539136‑539289
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
