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 |
|
A3 F1 I1 R1
|
502 |
34.8 |
1912488 |
98.2% |
1878063 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,362,820 |
C→T |
T5M (ACG→ATG) |
yhcD → |
putative fimbrial usher protein YhcD |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,362,820 | 0 | C | T | 100.0%
| 54.0
/ NA
| 16 | T5M (ACG→ATG) | yhcD | putative fimbrial usher protein YhcD |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (8/8); total (8/8) |
TTATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAACGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCTGTTGATT > NC_000913/3362750‑3362897
|
ttATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGcc < 2:629256/81‑1 (MQ=255)
gTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCAt < 1:629257/81‑1 (MQ=255)
ataaataTGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTgg > 1:629291/1‑81 (MQ=255)
atatGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGtttt < 1:629258/81‑1 (MQ=255)
tCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCt < 1:629259/80‑1 (MQ=255)
cTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTccc > 2:629293/1‑81 (MQ=255)
tGCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATg > 1:629292/1‑78 (MQ=255)
gCCTGGAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAg < 2:629260/80‑1 (MQ=255)
ggAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATgg > 1:629288/1‑80 (MQ=255)
gAGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGt < 1:629261/80‑1 (MQ=255)
aGCGACAAGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGta > 2:629297/1‑80 (MQ=255)
aaGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGAt > 2:629294/1‑81 (MQ=255)
aGGATGTTAAAAAAAATGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGAtt < 2:629262/81‑1 (MQ=255)
aaaaaaaTGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCTGtt > 1:629286/1‑81 (MQ=255)
aaaaTGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCTGTTGAt > 1:629289/1‑81 (MQ=255)
aaaTGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCTGTTGAtt < 2:629263/81‑1 (MQ=255)
|
TTATCGCGGTAATAAATATGTCACTGACTTAAAATAACTTTGCCTGGAGCGACAAGGATGTTAAAAAAAACGTTACTGGCCTACACCATTGGTTTTGCCTTTTCTCCCCCAGCCAATGCAGATGGTATAGAGATTGCCGCTGTTGATT > NC_000913/3362750‑3362897
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
