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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
675,311 |
T→A |
36.5% |
V43E (GTG→GAG) |
ycbG → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 675,311 | 0 | T | A | 36.5%
| 30.0
/ 30.9
| 41 | V43E (GTG→GAG) | ycbG | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (21/5); new base A (13/2); total (34/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
AATCACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCGGAAC > minE/675264‑675379
|
aaTCACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGa > 1:2954299/1‑69 (MQ=255)
aaTCACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGa > 1:1117631/1‑69 (MQ=255)
cACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAAcc < 1:1959423/69‑1 (MQ=255)
cACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAAc < 1:2752105/68‑1 (MQ=255)
cACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAAc < 1:725039/68‑1 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:1537057/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:431804/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:1937965/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:563682/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:605219/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:125132/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:1243892/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGAtgt > 1:1122241/1‑37 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTg > 1:643072/1‑68 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTg > 1:2303953/1‑68 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTg > 1:1821889/1‑68 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTg > 1:2307743/1‑68 (MQ=255)
aCATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTg > 1:449146/1‑68 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTaaa > 1:2777632/1‑68 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTa < 1:266241/66‑1 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTa > 1:2258797/1‑66 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTa < 1:258759/66‑1 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTa > 1:2373894/1‑66 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAAt > 1:2037386/1‑69 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAAt > 1:1723618/1‑69 (MQ=255)
gAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAAt > 1:3162124/1‑69 (MQ=255)
aGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTa < 1:3098250/60‑1 (MQ=255)
aGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTgg > 1:1517021/1‑69 (MQ=255)
aGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTgg > 1:2651106/1‑69 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGaaa > 1:2473856/1‑41 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:474073/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:730203/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:3211009/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:2822904/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:844925/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:1078704/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:103637/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:1597083/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:1681238/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:1918862/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGTTGGa > 1:1999902/1‑68 (MQ=255)
tGCCGCCCAGGAAGCCGTCGATGAGATGCTCTCGCTCGAAAATGAACCCGTGCTgga > 1:3222274/1‑56 (MQ=255)
gccgccCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGAtt > 1:3055641/1‑69 (MQ=255)
gccgccCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGAtt > 1:2456648/1‑69 (MQ=255)
ggAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCa < 1:692404/69‑1 (MQ=255)
gAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGCCAAGCat > 1:2124708/1‑69 (MQ=255)
gAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCat > 1:3098782/1‑69 (MQ=255)
aaGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAAcc > 1:2687343/1‑37 (MQ=255)
aaGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCat > 1:620002/1‑68 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:381073/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:202299/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:2014757/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:317548/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:518622/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:2448032/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:313497/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:2658776/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:661034/68‑1 (MQ=255)
tgtgTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:2777484/68‑1 (MQ=255)
tgtgTTGCTCTCGCCGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:283657/68‑1 (MQ=255)
gtgtTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCgg < 1:1396616/67‑1 (MQ=255)
tgtTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCGGAAc > 1:1103392/1‑69 (MQ=255)
|
AATCACCCGTTACATAGAAGCCAGTGCCGCCCAGGAAGCCGTCGATGTGTTGCTCTCGCTGGAAAATGAACCCGTGCTGGTAAATGGCTGGATTGACAAGCATATGAATCCGGAAC > minE/675264‑675379
|
| 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
