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 |
|
A2 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
400,660 |
A→G |
100% |
F292F (TTT→TTC) |
dacA ← |
D‑alanyl‑D‑alanine carboxypeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 400,660 | 0 | A | G | 81.8%
| 93.2
/ 14.8
| 44 | F292F (TTT→TTC) | dacA | D‑alanyl‑D‑alanine carboxypeptidase |
| Reads supporting (aligned to +/- strand): ref base A (8/0); new base G (36/0); total (44/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.51e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CAAACCAAACCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCA > minE/400602‑400705
|
caaacgaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1367519/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGac > 1:2186084/1‑63 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:616286/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1092106/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1967676/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:2066466/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:2120686/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:2246763/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:2296182/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:265693/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:526956/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1857671/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:629246/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:639885/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:709150/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:734652/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:741178/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:863740/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:878347/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:934797/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1098600/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1262691/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1201852/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1520686/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1525658/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1565659/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1569957/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1573333/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1182053/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1175858/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1629763/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:169961/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1705708/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1706003/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCGAAGAAAc > 1:1797674/1‑66 (MQ=255)
caaaccaaacCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGATAACGGTTTCGAAGAAAc > 1:1806191/1‑66 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTTCTTTCGGCTTCa > 1:572118/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:1186499/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:516669/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:1284985/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:2262741/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:2260064/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:159890/1‑67 (MQ=255)
tttCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCa > 1:1843315/1‑67 (MQ=255)
|
CAAACCAAACCGGTTCAGAGGCGAACTCTTTACCTACTTTCAGTGGGTTAACGGTTTCAAAGAAACGGAAGCCCCAGGTTAGCAGTTTTTTACTTTCGGCTTCA > minE/400602‑400705
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
