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 I0 R2
|
532 |
47.8 |
3863072 |
94.9% |
3666055 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,303,631 |
C→T |
100% |
Q246Y (CAG→TAT) |
oppA → |
oligopeptide transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,303,631 | 0 | C | T | 100.0%
| 126.7
/ NA
| 45 | Q246Y (CAG→TAT) | oppA | oligopeptide transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (24/21); total (24/21) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAAT > W3110S.gb/1303567‑1303695
|
aaaCGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTaa > 1:3191839/1‑71 (MQ=255)
cgaaggaaTCGTTCTTGAAGGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc > 1:3634912/1‑70 (MQ=255)
gaacgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:1466416/71‑1 (MQ=255)
cgaaTCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGAGAAAACCGTTATTAACTATGTAACCTAtt > 1:388038/1‑70 (MQ=255)
gTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTAt > 1:3115621/1‑71 (MQ=255)
gTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTAt > 1:3111249/1‑71 (MQ=255)
ttCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAAcc < 1:878735/59‑1 (MQ=255)
tCTTGAACGCAGCCCGCCCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTAtt > 1:3434323/1‑70 (MQ=255)
ttGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCt > 1:1822560/1‑71 (MQ=255)
aCGCAGCCCGACCTACTTGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTg < 1:1526591/71‑1 (MQ=255)
gCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCt > 1:1256082/1‑68 (MQ=255)
gCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTg > 1:702128/1‑69 (MQ=255)
cAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAg < 1:1850513/71‑1 (MQ=255)
cccGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTa > 1:3116236/1‑71 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc > 1:9542/1‑71 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc > 1:584801/1‑71 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc < 1:3850598/71‑1 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc < 1:1644997/71‑1 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc > 1:2958765/1‑71 (MQ=255)
cGACCTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAc > 1:622310/1‑70 (MQ=255)
cGACATACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAc > 1:598459/1‑70 (MQ=255)
cTACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGAt < 1:1827351/70‑1 (MQ=255)
tACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:3233466/41‑1 (MQ=38)
tACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:1580459/41‑1 (MQ=38)
tACTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTa < 1:39446/41‑1 (MQ=38)
cTGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCa < 1:1330267/71‑1 (MQ=255)
tGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCg < 1:550207/64‑1 (MQ=255)
tGGAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCaa > 1:2544279/1‑71 (MQ=255)
ggAACAACGCGAAAACCGTTATTAACTATGTAACCTAt > 1:1024959/1‑38 (MQ=37)
gAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTc > 1:3666995/1‑51 (MQ=255)
gAACAACGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGaa > 1:3326468/1‑55 (MQ=255)
acaacGCGAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGc < 1:2928469/71‑1 (MQ=255)
gcgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCaa > 1:3796272/1‑62 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt < 1:397729/71‑1 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGt < 1:901489/71‑1 (MQ=255)
cgAAAACCGTTATTAACTATGTAACCTATTTGACTATTGCTTCTGAAGTTAACGATGTCAACCGCTACCGt < 1:2398658/71‑1 (MQ=255)
gAAAACCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTAcc < 1:33854/52‑1 (MQ=255)
gAAAACCGCTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTa < 1:2334538/71‑1 (MQ=255)
aaaCCGTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAg > 1:2084385/1‑45 (MQ=38)
gTTATTAACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGa < 1:2297870/71‑1 (MQ=255)
attaACTATGTAACCTATTTGCCTATTGCTTCTGaa > 1:979939/1‑36 (MQ=37)
attaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAAt > 1:668184/1‑71 (MQ=255)
attaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAAt > 1:3154936/1‑71 (MQ=255)
ttaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCt < 1:613050/54‑1 (MQ=255)
ttaACTATGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCt < 1:274524/54‑1 (MQ=255)
|
AAACGAACGAATCGTTCTTGAACGCAGCCCGACCTACTGGAACAACGCGAAAACCGTTATTAACCAGGTAACCTATTTGCCTATTGCTTCTGAAGTTACCGATGTCAACCGCTACCGTAGTGGTGAAAT > W3110S.gb/1303567‑1303695
|
| 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
