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 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,819,760 |
G→T |
10.8% |
A152E (GCG→GAG) |
chbF ← |
cryptic phospho‑beta‑glucosidase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,819,760 | 0 | G | T | 10.8%
| 141.7
/ 3.3
| 46 | A152E (GCG→GAG) | chbF | cryptic phospho‑beta‑glucosidase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base G (18/23); new base T (3/2); total (21/25) |
| Fisher's exact test for biased strand distribution p-value = 6.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.19e-01 |
ATATTACACACGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCTTTTACGATGTCAAAA > W3110S.gb/1819694‑1819828
|
atatTACACACGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCccgccg < 1:1708854/70‑1 (MQ=255)
ttACACACGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCTCCGGGt > 1:1580718/1‑70 (MQ=255)
acacGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAg < 1:3074812/69‑1 (MQ=255)
cacGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGt < 1:3560858/65‑1 (MQ=255)
acGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTg < 1:3081208/69‑1 (MQ=255)
cGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAg < 1:404898/71‑1 (MQ=255)
gCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGaa > 1:2184185/1‑69 (MQ=255)
cGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGtt < 1:1270712/70‑1 (MQ=255)
cGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTa < 1:1527132/71‑1 (MQ=255)
aTAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGtt < 1:853448/68‑1 (MQ=255)
aaaGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCa > 1:542433/1‑71 (MQ=255)
aaaGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCa > 1:4179110/1‑71 (MQ=255)
aaaGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCa > 1:430401/1‑71 (MQ=255)
aaaGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCa > 1:2046443/1‑71 (MQ=255)
aaaGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCa > 1:1930856/1‑71 (MQ=255)
aGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGaa > 1:2560412/1‑61 (MQ=255)
aGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCAcc < 1:1840144/71‑1 (MQ=255)
tttAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTaa < 1:3851877/62‑1 (MQ=255)
tttAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATg < 1:2058416/71‑1 (MQ=255)
tAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTaa > 1:3794481/1‑60 (MQ=255)
aaTCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCAt < 1:3339381/70‑1 (MQ=255)
cGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGa > 1:2610043/1‑71 (MQ=255)
ggTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTGGt < 1:1154692/45‑1 (MQ=255)
tGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGt < 1:3361706/37‑1 (MQ=255)
gACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGa < 1:143810/42‑1 (MQ=255)
aCGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGtt < 1:3179348/71‑1 (MQ=255)
aTAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTc > 1:1594313/1‑58 (MQ=255)
tAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCg < 1:106714/58‑1 (MQ=255)
tAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGttcttc < 1:15972/71‑1 (MQ=255)
aaaCGGCTTCAGTGACCATTCCCGCCGGGTTAGTGa > 1:930384/1‑36 (MQ=255)
aaaCGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATg > 1:588991/1‑51 (MQ=255)
aaCGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACa > 1:2106124/1‑60 (MQ=255)
aCGGCTTCAGTGACCATTCCCTCCGGGTTAGTGAAGTTAATCACCCATGCATTCgg < 1:3326927/56‑1 (MQ=255)
aCGGCTTCAGTGACCATTCCCTCCGGGTTAGTGAAGTTAATCACCCATGCATTCgg < 1:821137/56‑1 (MQ=255)
ggCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACAt < 1:32236/71‑1 (MQ=255)
ggCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACAt < 1:3608436/71‑1 (MQ=255)
cAGTGACCATTCCCTCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCttt > 1:3285882/1‑70 (MQ=255)
cAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCttt > 1:1239854/1‑70 (MQ=255)
cAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCttt > 1:1557950/1‑70 (MQ=255)
cAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCttt > 1:1660835/1‑70 (MQ=255)
cAGTGAACATTCCCTCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCtt > 1:856016/1‑69 (MQ=255)
gTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCTTTTAc < 1:2474106/71‑1 (MQ=255)
gTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCTTTTAc < 1:253821/71‑1 (MQ=255)
tGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGttc < 1:2483527/55‑1 (MQ=255)
cATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCTTTTACGATg < 1:2499469/70‑1 (MQ=255)
cccGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCtttt > 1:895307/1‑60 (MQ=255)
cccGCCGGGTTAGTGAAGTTAATCACCCATGCATTAGGACAAAGTTCTTCGACATCTTTTa > 1:850885/1‑61 (MQ=255)
cacgccgGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGttct > 1:2610141/3‑48 (MQ=255)
ccgccgGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCTTTTACGATGTCaaaa < 1:3022205/71‑1 (MQ=255)
|
ATATTACACACGCCGATAAAGCGTTTAAATCCGGTATGACGATAAACGGCTTCAGTGACCATTCCCGCCGGGTTAGTGAAGTTAATCACCCATGCATTCGGACAAAGTTCTTCGACATCTTTTACGATGTCAAAA > W3110S.gb/1819694‑1819828
|
| 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
