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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,861,751 |
T→C |
78.9% |
N423S (AAC→AGC) |
lldP ← |
L‑lactate permease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,861,751 | 0 | T | C | 78.9%
| 155.6
/ 35.6
| 71 | N423S (AAC→AGC) | lldP | L‑lactate permease |
| Reads supporting (aligned to +/- strand): ref base T (5/10); new base C (29/27); total (34/37) |
| Fisher's exact test for biased strand distribution p-value = 2.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGC > W3110S.gb/3861687‑3861816
|
gaagGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCg > 1:3065575/1‑68 (MQ=255)
gaagGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGa > 1:1554083/1‑69 (MQ=255)
gaagGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGa > 1:1700126/1‑69 (MQ=255)
ggTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGATGATGACAGTCCGGAATAGCTCGaaa > 1:1904176/1‑68 (MQ=255)
tGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGc < 1:343010/69‑1 (MQ=255)
tGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGc < 1:1332272/69‑1 (MQ=255)
gCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCg < 1:3573458/69‑1 (MQ=255)
gCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:2527509/69‑1 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAgg < 1:2924588/66‑1 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAgg < 1:2340699/66‑1 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAgg < 1:3079096/66‑1 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCg < 1:884635/68‑1 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGa > 1:2858565/1‑69 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGa > 1:1308405/1‑69 (MQ=255)
cATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGa > 1:2121686/1‑69 (MQ=255)
tGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAAt < 1:3696706/69‑1 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAAt > 1:3608829/1‑67 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAAt > 1:1984792/1‑67 (MQ=255)
aCCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAAt > 1:1231013/1‑67 (MQ=255)
ggTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCCAATGCCAg < 1:2634946/69‑1 (MQ=255)
gtgCGCCAGTGCCAGCGCCAGTGTTGATGAAAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCAc < 1:2870946/69‑1 (MQ=255)
gcgcCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATaa < 1:1465375/51‑1 (MQ=255)
aGTGCCAGCGCCAGTGTTGATGACAGTCTGGAATAGTTCGAAATaa < 1:1382530/46‑1 (MQ=255)
gCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAAt < 1:1946869/41‑1 (MQ=255)
gCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:558822/48‑1 (MQ=255)
gCCAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCg < 1:2594497/48‑1 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg < 1:2633021/69‑1 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg < 1:2442971/69‑1 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg > 1:3123975/1‑69 (MQ=255)
ccAGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg > 1:1210162/1‑69 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATaaa > 1:3714322/1‑41 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg > 1:1918636/1‑67 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg > 1:3435016/1‑67 (MQ=255)
aGCGCCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATgg > 1:766373/1‑67 (MQ=255)
cgcCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:348296/69‑1 (MQ=255)
cgcCAGTGTTGATGACAGTCCGGAATAGCTCGAAAT‑AAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:2260954/69‑1 (MQ=255)
gcCAGTGTTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:2516065/69‑1 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg > 1:2994268/1‑57 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg > 1:1035841/1‑57 (MQ=255)
gtTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATCCCAGCACCAt > 1:2104285/1‑50 (MQ=255)
gtTGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAg < 1:2218259/44‑1 (MQ=255)
gtTGATGACAGTCCGGAATAGCTCCAAATAAAGGCGAATGCCAg < 1:3616266/44‑1 (MQ=38)
ttGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAg < 1:2213623/43‑1 (MQ=255)
ttGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:2319478/62‑1 (MQ=255)
ttGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:2291147/62‑1 (MQ=255)
ttGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:3040138/62‑1 (MQ=255)
ttGATGACAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:742096/62‑1 (MQ=255)
gatgaCAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATg > 1:1811347/1‑54 (MQ=255)
gaCAGTCCGGAATAGCTCGAAATAAAGGCGAATGCCAGCAc > 1:3170318/1‑41 (MQ=255)
aGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGt > 1:683755/1‑69 (MQ=255)
ccGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAg < 1:170870/51‑1 (MQ=255)
ccGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGtt > 1:2324924/1‑67 (MQ=255)
ccGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGtt > 1:2320589/1‑67 (MQ=255)
ccGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGtt > 1:537668/1‑67 (MQ=255)
ccGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGtt > 1:864118/1‑67 (MQ=255)
ccGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGt > 1:179348/1‑66 (MQ=255)
cGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCtt < 1:1722987/69‑1 (MQ=255)
cGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATg < 1:89378/44‑1 (MQ=255)
cGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATg < 1:3652133/44‑1 (MQ=255)
cGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATg < 1:1230764/44‑1 (MQ=255)
cGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:2061889/49‑1 (MQ=255)
cGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:2057610/49‑1 (MQ=255)
cGGAATAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTa < 1:173927/49‑1 (MQ=255)
aaTAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGcc > 1:2399606/1‑59 (MQ=255)
aaTAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGcc > 1:1644165/1‑59 (MQ=255)
aaTAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGcc > 1:1281663/1‑59 (MQ=255)
aaTAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGc > 1:2671740/1‑58 (MQ=255)
tAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTGAGc > 1:246947/1‑69 (MQ=255)
tAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGc > 1:3098598/1‑69 (MQ=255)
tAGCTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGc > 1:2491973/1‑69 (MQ=255)
gTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAg < 1:618741/40‑1 (MQ=255)
|
GAAGGTGAATGCATGACCGGTGTGCGCCAGTGCCAGCGCCAGTGTTGATGACAGTCCGGAATAGTTCGAAATAAAGGCGAATGCCAGCACCATACCGATGGAGTAGATGGGCAGAGCCAGTTCTTTCAGC > W3110S.gb/3861687‑3861816
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
