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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,695,639 |
T→C |
46.4% |
E124G (GAG→GGG) |
yfhQ ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,695,639 | 0 | T | C | 46.4%
| 9.2
/ 97.3
| 69 | E124G (GAG→GGG) | yfhQ | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (22/15); new base C (20/12); total (42/27) |
| Fisher's exact test for biased strand distribution p-value = 8.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
CATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGCCGCTTCAGC > minE/1695569‑1695706
|
cATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAAct < 1:810517/71‑1 (MQ=255)
cATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAAct < 1:2042335/71‑1 (MQ=255)
ccAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCa < 1:2094863/71‑1 (MQ=255)
ccAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCa < 1:743121/71‑1 (MQ=255)
ccAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCa < 1:3080958/71‑1 (MQ=255)
cAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCa < 1:531429/70‑1 (MQ=255)
gTTCAGCGCGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTg > 1:2480208/1‑70 (MQ=255)
ttCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGt < 1:227422/71‑1 (MQ=255)
cAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTc < 1:2110550/70‑1 (MQ=255)
aGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCa < 1:1471628/70‑1 (MQ=255)
cGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGc > 1:1045485/1‑71 (MQ=255)
gAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGcc < 1:2748520/71‑1 (MQ=255)
aGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGcc > 1:3625939/1‑70 (MQ=255)
aGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCg > 1:2989475/1‑71 (MQ=255)
tCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTc > 1:275283/1‑71 (MQ=255)
gggTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTcgcg < 1:3148538/71‑1 (MQ=255)
ttAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTcgcg > 1:3493373/1‑68 (MQ=255)
ttAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGa > 1:182416/1‑69 (MQ=255)
ttAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGa > 1:851410/1‑69 (MQ=255)
ttAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGAcc < 1:317713/71‑1 (MQ=255)
aGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTc > 1:1647038/1‑63 (MQ=255)
gCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAacac > 1:1968475/1‑71 (MQ=255)
cAATCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGAGCTCGCGACCAAacac > 1:2831237/1‑70 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc < 1:3409430/51‑1 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc < 1:2226633/51‑1 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc < 1:3436616/51‑1 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc < 1:2959151/51‑1 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:2140501/1‑46 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:1258708/1‑46 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:1024722/1‑46 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:1971758/1‑46 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:925438/1‑46 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:627162/1‑46 (MQ=255)
aaTCGCGACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAg > 1:1427290/1‑46 (MQ=255)
cgcgACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTcgcg < 1:709696/57‑1 (MQ=255)
gcgACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgcgc > 1:705913/1‑71 (MQ=255)
gcgACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgcgc > 1:1886864/1‑71 (MQ=255)
gcgACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgcgc > 1:3436664/1‑71 (MQ=255)
gcgACATGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgcgc > 1:176674/1‑71 (MQ=255)
gcgACATGAAAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgcg < 1:26004/70‑1 (MQ=255)
tGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGa > 1:399337/1‑40 (MQ=255)
tGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc > 1:623328/1‑41 (MQ=255)
tGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc > 1:1210703/1‑41 (MQ=255)
tGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc > 1:2907832/1‑41 (MQ=255)
tGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc > 1:1987026/1‑41 (MQ=255)
tGATAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGa > 1:905891/1‑51 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAaca > 1:1774251/1‑56 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAaca > 1:1756193/1‑56 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAaca > 1:2240129/1‑56 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAaca > 1:3013912/1‑56 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAaca > 1:2036309/1‑56 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAac > 1:3518973/1‑55 (MQ=255)
aTAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAgc > 1:313746/1‑61 (MQ=255)
aTAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACAcc < 1:1540999/58‑1 (MQ=255)
tAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGAc < 1:33131/38‑1 (MQ=255)
tAATGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACAcc < 1:2339373/57‑1 (MQ=255)
aTGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTAt < 1:2746465/71‑1 (MQ=255)
aTGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTAt < 1:1799695/71‑1 (MQ=255)
aTGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTAt < 1:3078485/71‑1 (MQ=255)
tGGCATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTAtt < 1:362530/71‑1 (MQ=255)
cATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGa > 1:2179767/1‑42 (MQ=255)
cATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGa > 1:542446/1‑42 (MQ=255)
cATTTCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGa > 1:432334/1‑42 (MQ=255)
tttCTGCAACCCTTCATTGGTCAAGCCGACGCGCTcgcg < 1:1276013/39‑1 (MQ=255)
tttCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCa < 1:681890/43‑1 (MQ=255)
tttCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGc > 1:2414561/1‑69 (MQ=255)
tttCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGCCg > 1:158328/1‑71 (MQ=255)
tttCTGCAACCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGCCg < 1:2902171/71‑1 (MQ=255)
ttCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGc > 1:3483928/1‑68 (MQ=255)
gCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAacac > 1:3452407/1‑43 (MQ=255)
aaCCCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTCCCGCTTCAGc < 1:3316197/71‑1 (MQ=255)
|
CATCGCCAGGTTCAGCGAGCTGTATTCCGGGTTAGCCGCAATCGCGACATGATAATGGCATTTCTGCAACTCTTCATTGGTCAAGCCGACGCGCTCGCGACCAAACACCAGCGCCACCGGGGTATTTGCCGCTTCAGC > minE/1695569‑1695706
|
| 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
