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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,205,103 |
A→G |
79.4% |
intergenic (‑191/‑16) |
ygiP ← / → ttdA |
predicted DNA‑binding transcriptional regulator/L‑tartrate dehydratase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,205,103 | 0 | A | G | 79.4%
| 72.4
/ 14.1
| 34 | intergenic (‑191/‑16) | ygiP/ttdA | predicted DNA‑binding transcriptional regulator/L‑tartrate dehydratase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (5/2); new base G (4/23); total (9/25) |
| Fisher's exact test for biased strand distribution p-value = 7.42e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.83e-01 |
GGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAG > W3110S.gb/3205035‑3205166
|
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:784870/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:475560/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:1665260/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:1641918/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:1836073/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:1422614/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:1017093/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:338910/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACaaa < 1:772821/71‑1 (MQ=255)
aaaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTgg < 1:1057243/71‑1 (MQ=255)
aaaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTgg < 1:778681/71‑1 (MQ=255)
aaaaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTgg < 1:1360720/70‑1 (MQ=255)
tataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGc < 1:477804/71‑1 (MQ=255)
tataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGc < 1:1544763/71‑1 (MQ=255)
tataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGc < 1:1032986/71‑1 (MQ=255)
aaaCCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCat < 1:603952/70‑1 (MQ=255)
aTTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGc < 1:1175684/60‑1 (MQ=255)
aGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:1881223/70‑1 (MQ=255)
tAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTgg < 1:104091/43‑1 (MQ=255)
tAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTgg < 1:1041483/43‑1 (MQ=255)
gTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:1812859/70‑1 (MQ=255)
gTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:973864/70‑1 (MQ=255)
gTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:737274/70‑1 (MQ=255)
gTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:657406/70‑1 (MQ=255)
ttGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:224321/1‑70 (MQ=255)
ttGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:1645233/1‑70 (MQ=255)
ttGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:1035002/1‑70 (MQ=255)
ttGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:1351309/1‑70 (MQ=255)
ttGTGGCGGTGAATTTTCCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:1034936/1‑70 (MQ=255)
ggTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGt < 1:1444631/71‑1 (MQ=255)
gTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGt < 1:476403/70‑1 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:312452/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:424963/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:1259198/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:959004/1‑70 (MQ=255)
cAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGa < 1:661133/70‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga < 1:235359/71‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga < 1:855064/71‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga < 1:1951869/71‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga < 1:117922/71‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACaga < 1:1270548/71‑1 (MQ=255)
cAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACagag < 1:194722/71‑1 (MQ=255)
cAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACagag < 1:613953/71‑1 (MQ=255)
|
GGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAG > W3110S.gb/3205035‑3205166
|
| 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
