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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,960,751 |
C→T |
51.1% |
R83H (CGT→CAT) |
kdgK ← |
ketodeoxygluconokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,960,751 | 0 | C | T | 51.1%
| ‑5.5
/ 66.5
| 45 | R83H (CGT→CAT) | kdgK | ketodeoxygluconokinase |
| Reads supporting (aligned to +/- strand): ref base C (17/5); new base T (17/6); total (34/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCGCCAGTAGTAGAACGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCAT > W3110S.gb/3960687‑3960812
|
ccGCCAGTAGTAGAACGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGtttt > 1:1468436/1‑71 (MQ=255)
agAACGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTgg > 1:3619842/1‑71 (MQ=255)
gAACGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTggg > 1:2375730/1‑71 (MQ=255)
gAACGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTgg > 1:1842361/1‑70 (MQ=255)
aCGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTc < 1:2354520/71‑1 (MQ=255)
cGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCAATCCGTTGGGTCa < 1:2973574/71‑1 (MQ=255)
tACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTggg > 1:3992360/1‑66 (MQ=255)
tACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAgg > 1:112272/1‑71 (MQ=255)
tACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAgg > 1:2520209/1‑71 (MQ=255)
tACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAgg > 1:1942236/1‑71 (MQ=255)
cGCTCGCCTGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGa < 1:1278158/71‑1 (MQ=255)
cGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAgg > 1:67973/1‑69 (MQ=255)
cGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAgg > 1:1932058/1‑69 (MQ=255)
cGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGa < 1:319106/71‑1 (MQ=255)
ggTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATc < 1:425251/69‑1 (MQ=255)
cTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGtt > 1:95890/1‑38 (MQ=255)
cTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGATGGtt > 1:1209707/1‑38 (MQ=255)
tCGGTTTCAATGCAGTAAAGGCCCGGCAGATGGTTCTCCATCCGTTGGGTCAGGGAAGTATc < 1:3866325/62‑1 (MQ=255)
cGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGtt > 1:1604570/1‑67 (MQ=255)
cGGTTTCAATGTAGTAAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCg > 1:1912017/1‑71 (MQ=255)
ggTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGaa > 1:422477/1‑55 (MQ=255)
ggTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGc > 1:3812284/1‑71 (MQ=255)
tttCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGa < 1:3666085/52‑1 (MQ=255)
ttCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGt > 1:3006253/1‑71 (MQ=255)
cAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTtct > 1:1494774/1‑63 (MQ=255)
gtagtaAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAgg > 1:2464846/1‑71 (MQ=255)
gtagtaAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAgg > 1:2220030/1‑71 (MQ=255)
gtagtaAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAgg > 1:1939551/1‑71 (MQ=255)
gtagtaAAGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAg > 1:3659675/1‑70 (MQ=255)
tagtaAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGc > 1:3692145/1‑71 (MQ=255)
aaGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTc > 1:1384819/1‑69 (MQ=255)
aaGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTc > 1:3709738/1‑69 (MQ=255)
aaGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACCTtctc > 1:1695777/1‑54 (MQ=255)
aaGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCa > 1:2552520/1‑35 (MQ=255)
aaGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAg > 1:1006840/1‑41 (MQ=255)
aaGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCaa > 1:1592138/1‑47 (MQ=255)
aGGCCCGGCAGATGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGt < 1:2716258/49‑1 (MQ=255)
ggCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGc < 1:3552639/71‑1 (MQ=255)
gCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCa > 1:3569791/1‑71 (MQ=255)
gCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCa > 1:182703/1‑71 (MQ=255)
cAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGc < 1:3706377/64‑1 (MQ=255)
cAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGc < 1:2906163/64‑1 (MQ=255)
gACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCAt > 1:1667692/1‑64 (MQ=255)
gACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCAt > 1:1352530/1‑64 (MQ=255)
gACGGTTTTACATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCAt > 1:2007870/1‑64 (MQ=255)
|
CCGCCAGTAGTAGAACGTACGCTCGCCGGTGCTGTCGGTTTCAATGTAGTAAAGGCCCGGCAGACGGTTTTCCATCCGTTGGGTCAGGGAAGTATCAACGTTCTCGCCGTGCCAGGCGTCCAGCAT > W3110S.gb/3960687‑3960812
|
| 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
