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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,230,986 |
C→T |
30.3% |
E590E (GAG→GAA) |
ptrB ← |
protease II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,230,986 | 0 | C | T | 30.3%
| 66.0
/ 29.3
| 69 | E590E (GAG→GAA) | ptrB | protease II |
| Reads supporting (aligned to +/- strand): ref base C (21/27); new base T (8/13); total (29/40) |
| Fisher's exact test for biased strand distribution p-value = 7.93e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTTACCAGTAAATGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGA > minE/1230920‑1231051
|
cGTTACTAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:426566/69‑1 (MQ=255)
cGTTACCAGTAGATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:1129413/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:2215334/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:2713461/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:1259863/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:1333612/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:2810470/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:1804705/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:3007211/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTCTAGCTTTTCATATATTc < 1:2536628/69‑1 (MQ=255)
cGTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGGCATACGGGCTGTAGCTTTTCATATATTc < 1:3363092/69‑1 (MQ=255)
gTTACCAGTAAATGCGGATAAACCTGTGCAGTGACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:645242/68‑1 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:3212283/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:1031354/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:29029/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:2962133/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:2964264/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:300809/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:3355271/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:36888/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:859086/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:936107/1‑69 (MQ=255)
aaTGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCg > 1:1062149/1‑69 (MQ=255)
tGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGa < 1:2876088/69‑1 (MQ=255)
tGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGa < 1:2565576/69‑1 (MQ=255)
gATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATcc < 1:1351879/68‑1 (MQ=255)
gATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATcc < 1:1551021/68‑1 (MQ=255)
aGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCgg > 1:792608/1‑69 (MQ=255)
aGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCgg > 1:2913424/1‑69 (MQ=255)
aGCCTGAGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCgg > 1:5591/1‑69 (MQ=255)
gACGTTGTCATACGGGCTGTAGCTTTTCATATATTc < 1:596762/36‑1 (MQ=255)
ttGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:979799/69‑1 (MQ=255)
ttGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:659586/69‑1 (MQ=255)
ttGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:157407/69‑1 (MQ=255)
ttGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:1710792/69‑1 (MQ=255)
ttGTCATACGGGCTGTAGCCTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:3335510/69‑1 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaa < 1:371354/69‑1 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaa < 1:171047/69‑1 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:2883428/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:663033/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:1316868/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:385119/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:355499/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:3225705/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCCCCACTCTTCaa > 1:2827709/1‑69 (MQ=255)
tGTCATACGGGCTGTAGCTTTTCATATATTCGTAATATTGCGGATCCTGCGGATTCCACCACTCTTCaa > 1:2505832/1‑69 (MQ=255)
gTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaaa > 1:1076156/1‑69 (MQ=255)
gTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaaa > 1:893697/1‑69 (MQ=255)
gTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaa > 1:2220853/1‑68 (MQ=255)
aTACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:3167965/69‑1 (MQ=255)
aTACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:814121/69‑1 (MQ=255)
aTACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:1945975/69‑1 (MQ=255)
aTACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:2635969/69‑1 (MQ=255)
aTACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:50021/69‑1 (MQ=255)
aTACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:1352640/69‑1 (MQ=255)
aTACGGGCTGTAGCTTTTCATGCACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTc < 1:1946719/69‑1 (MQ=255)
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCAc < 1:2761842/69‑1 (MQ=255)
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCAc < 1:2134193/69‑1 (MQ=255)
tGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTg > 1:2979416/1‑68 (MQ=255)
tGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTg > 1:1667657/1‑68 (MQ=255)
tGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTg > 1:2449088/1‑68 (MQ=255)
tGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTg > 1:3205099/1‑68 (MQ=255)
tttCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAgg < 1:1141346/69‑1 (MQ=255)
tttCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAgg < 1:902689/69‑1 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCGAACTCACCAGTGGTAAGAGGAATTGa < 1:1553238/69‑1 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGa < 1:476276/69‑1 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGa < 1:1730305/69‑1 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGa < 1:195251/69‑1 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGa < 1:2489702/69‑1 (MQ=255)
|
CGTTACCAGTAAATGCGGATAAGCCTGTGCGGTGACGTTGTCATACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGA > minE/1230920‑1231051
|
| 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
