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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,099,623 |
C→A |
G168G (GGC→GGA) |
ycdX → |
predicted zinc‑binding hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,099,623 | 0 | C | A | 78.8%
| 81.9
/ 32.7
| 52 | G168G (GGC→GGA) | ycdX | predicted zinc‑binding hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (5/6); new base A (41/0); total (46/6) |
| Fisher's exact test for biased strand distribution p-value = 2.27e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
CGAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGTAC > W3110S.gb/1099565‑1099660
|
cgAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGt < 1:2662370/62‑1 (MQ=255)
cgAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGt < 1:3005643/62‑1 (MQ=255)
cgAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGt < 1:1891472/62‑1 (MQ=255)
cgAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGt < 1:429996/62‑1 (MQ=255)
gAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGt < 1:1485204/61‑1 (MQ=255)
aatTCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGc < 1:2835605/62‑1 (MQ=255)
tCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGt > 1:2395030/1‑62 (MQ=255)
tCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGt > 1:667049/1‑62 (MQ=255)
tCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGt > 1:2924853/1‑62 (MQ=255)
tCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGt > 1:2627462/1‑62 (MQ=255)
tCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGt > 1:1861712/1‑62 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCTCAGCGGTAc > 1:140272/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTa > 1:2297835/4‑60 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTa > 1:2255449/4‑60 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2897206/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2901583/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2930692/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2949410/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:332193/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:3061170/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1198810/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:338335/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:352397/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:596086/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:620398/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:705636/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:745218/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:774053/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:800145/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:87954/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2638749/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1139724/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1334464/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1340573/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1402019/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1472784/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1504986/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1670399/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1757122/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1788344/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1799087/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:187971/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:1945063/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2098987/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2171843/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2272482/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2330521/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2375591/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2624875/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:2806541/4‑61 (MQ=255)
tcttttttACACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGAAGCGGTAc > 1:885845/4‑61 (MQ=255)
tcttttttAAACTCACGTAAGGGAAGTGAAGACAATTGTCGTGCGGTAGCCGCAGCGGTAc > 1:133742/4‑61 (MQ=255)
|
CGAAACATCAGGTGGCGCTGGAAATCAATAATTCCTCATTTTTACACTCACGTAAGGGCAGTGAAGACAACTGTCGTGAGGTAGCCGCAGCGGTAC > W3110S.gb/1099565‑1099660
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
