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
|
66 |
46.7 |
5280542 |
98.1% |
5180211 |
47.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
3,110,650 |
C→T |
F27F (TTC→TTT) |
vgrG → |
type VI secretion system tip protein VgrG |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 3,110,650 | 0 | C | T | 100.0%
| 12.5
/ NA
| 8 | F27F (TTC→TTT) | vgrG | type VI secretion system tip protein VgrG |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (1/7); total (1/7) |
GCTCAAAATTCGCGGCCAGCAAAGTCCGGTGGATGTGCTGACCTTCGAAGGCCGCGAACAACTGAGTACCCCGTTCCGCTACGATATCCA > NC_017635/3110605‑3110694
|
gCTCAAAATTCGCGGCCAGCAAAGTCCGGTGGATGTGCTGACCTTTGa < 2:166426/48‑1 (MQ=255)
aaTTCGCGGCCAGCAAAGTCCGGTGGATGTGCTGACCTTTGAAGGCcg < 2:1105873/48‑1 (MQ=255)
gCCAGCAAAGTCCGGTGGATGTGCTGACCTTTGAAGGCCGCGagcaac < 1:1494359/48‑1 (MQ=11)
cAGCAAAGTCCGGTGGATGTGCTGACCTTTGAAGGCCGCGAGCAACt > 2:1779972/1‑47 (MQ=11)
cTGACCTTTGAAGGCCGCGAGCAACTGAGTACCCCGTTCCGCTACGat < 2:663082/48‑1 (MQ=11)
aCCTTTGAAGGCCGCGAGCAACTGAGTACCCCGTTCCGCTACGata < 2:1537835/46‑1 (MQ=11)
cTTTGAAGGCCGCGAGCAACTGAGTACCCCGTTCCGCTACGATATCCa < 2:1568195/48‑1 (MQ=14)
cTTTGAAGGCCGCGAGCAACTGAGTACCCCGTTCCGCTACGATATCCa < 2:932701/48‑1 (MQ=14)
|
GCTCAAAATTCGCGGCCAGCAAAGTCCGGTGGATGTGCTGACCTTCGAAGGCCGCGAACAACTGAGTACCCCGTTCCGCTACGATATCCA > NC_017635/3110605‑3110694
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
