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 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,390,615 |
A→G |
57.0% |
Q249Q (CAA→CAG) |
nfo → |
endonuclease IV with intrinsic 3'‑5' exonuclease activity |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,390,615 | 0 | A | G | 57.0%
| 36.4
/ 102.4
| 86 | Q249Q (CAA→CAG) | nfo | endonuclease IV with intrinsic 3'‑5' exonuclease activity |
| Reads supporting (aligned to +/- strand): ref base A (17/20); new base G (26/23); total (43/43) |
| Fisher's exact test for biased strand distribution p-value = 6.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.23e-01 |
GCCGCGTTGACCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAG > minE/1390545‑1390681
|
gCCGCGTTGACCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCaa < 1:2931334/71‑1 (MQ=255)
gcgTTGACCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAga > 1:3066116/1‑70 (MQ=255)
gTTGACCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAgacga > 1:3275348/1‑71 (MQ=255)
tGACCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGAcc > 1:3768036/1‑71 (MQ=255)
aCCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGt < 1:3028768/71‑1 (MQ=255)
cGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAgacg > 1:2721176/1‑64 (MQ=255)
gCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGgacga > 1:779883/1‑64 (MQ=255)
gCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTc < 1:2183682/71‑1 (MQ=255)
ccATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTc > 1:1901954/1‑70 (MQ=255)
ccATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCg < 1:2366201/71‑1 (MQ=255)
ccATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCg < 1:2197719/71‑1 (MQ=255)
ccATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCg < 1:1491157/71‑1 (MQ=255)
catcatAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGa > 1:2640918/1‑71 (MQ=255)
catcatAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGa > 1:3892565/1‑71 (MQ=255)
atcatATCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGAc > 1:1220679/1‑71 (MQ=255)
tcatAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGgacg < 1:1155640/59‑1 (MQ=255)
tcatAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAga > 1:1804050/1‑57 (MQ=255)
tcatAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGa > 1:2094272/1‑69 (MQ=255)
catAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACgg > 1:1407377/1‑71 (MQ=255)
catAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACgg > 1:1402780/1‑71 (MQ=255)
catAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGt < 1:3063296/63‑1 (MQ=255)
atAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGgac < 1:2014106/56‑1 (MQ=255)
atAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACgg < 1:3532548/70‑1 (MQ=255)
atAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACgg < 1:3938568/70‑1 (MQ=255)
tAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCa < 1:2935888/71‑1 (MQ=255)
tAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCa < 1:2503202/71‑1 (MQ=255)
tAGCCTCGGTGAAGGCAATATCGGGCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCa < 1:546053/71‑1 (MQ=255)
aGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACgg > 1:1188023/1‑68 (MQ=255)
gCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCAtt > 1:1620671/1‑71 (MQ=255)
tGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGa < 1:85450/71‑1 (MQ=255)
tGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGa < 1:3064890/71‑1 (MQ=255)
gAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTcc < 1:3624652/65‑1 (MQ=255)
aaGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTg < 1:3884937/68‑1 (MQ=255)
aaGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATc < 1:130028/71‑1 (MQ=255)
gCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTc < 1:729966/71‑1 (MQ=255)
aaTATCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:1674208/71‑1 (MQ=255)
aaTATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:2757892/71‑1 (MQ=255)
aaTATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:2213882/71‑1 (MQ=255)
atatCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGAc < 1:1793285/50‑1 (MQ=255)
tatCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGaaa > 1:3742567/1‑71 (MQ=255)
tatCGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGaaa > 1:44019/1‑71 (MQ=255)
cGGTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGAt > 1:363270/1‑60 (MQ=255)
cGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGt < 1:1491358/40‑1 (MQ=255)
ggTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGatcatc > 1:3751276/1‑63 (MQ=255)
ggTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTc > 1:1109611/1‑63 (MQ=255)
ggTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCa > 1:3495097/1‑70 (MQ=255)
ggTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCAt > 1:1408344/1‑71 (MQ=255)
gTCATGATGCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCa > 1:2847678/1‑69 (MQ=255)
tCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCa < 1:1662084/71‑1 (MQ=255)
tCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCa < 1:474266/71‑1 (MQ=255)
atgatgCGTTCCGCTGGATCATGCAGGACGACCGTTTCg < 1:2462096/39‑1 (MQ=255)
atgatgCGTTCCGCTGGATCATGCAGGACGACCGTTTCg < 1:541017/39‑1 (MQ=255)
atgatgCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCa < 1:3504231/66‑1 (MQ=255)
atgatgCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAc > 1:3488214/1‑71 (MQ=255)
atgatgCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAc > 1:83233/1‑71 (MQ=255)
tgatgCGTTCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAcc < 1:2562674/71‑1 (MQ=255)
gatgCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACg > 1:1163798/1‑40 (MQ=255)
atgCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCAt < 1:1173976/43‑1 (MQ=255)
tgCGTTCCGCTGGATCATGCAAGACGCCCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg > 1:3125333/1‑70 (MQ=255)
tgCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg > 1:1216162/1‑70 (MQ=255)
tgCGTTCCGCTGGATCATGCAAGACGACAGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCg > 1:2500734/1‑70 (MQ=255)
tgccGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATc < 1:95186/58‑1 (MQ=255)
tCCGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATc > 1:1733302/1‑71 (MQ=255)
ccGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCt > 1:1982138/1‑71 (MQ=255)
ccGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAccc > 1:1706866/1‑63 (MQ=255)
ccGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAccc > 1:3513282/1‑63 (MQ=255)
cGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCt < 1:1934487/70‑1 (MQ=255)
cGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCt < 1:1447086/70‑1 (MQ=255)
cGCTGGATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACAATCAACCCGGATATCt < 1:772766/70‑1 (MQ=255)
cGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTg < 1:2465697/71‑1 (MQ=255)
gATCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGc < 1:3353529/69‑1 (MQ=255)
gATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:1411147/45‑1 (MQ=255)
gATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:813857/45‑1 (MQ=255)
gATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGa < 1:3946063/45‑1 (MQ=255)
gATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTggg > 1:3046799/1‑68 (MQ=255)
aTCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCt > 1:2346471/1‑64 (MQ=255)
tCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATc > 1:3393154/1‑50 (MQ=255)
tCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATc > 1:2330021/1‑50 (MQ=255)
tCATGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCagaa < 1:1927253/71‑1 (MQ=255)
aTGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCagaa > 1:3304392/1‑69 (MQ=255)
tGCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:821385/71‑1 (MQ=255)
tGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAagag < 1:530208/71‑1 (MQ=255)
gCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAc > 1:3311206/1‑49 (MQ=255)
gCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAc > 1:1662436/1‑49 (MQ=255)
gCAGGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCagaa > 1:1993363/1‑67 (MQ=255)
gCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCagaa > 1:3155964/1‑67 (MQ=255)
cAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAAccc > 1:899921/1‑50 (MQ=255)
|
GCCGCGTTGACCGCCATCATAGCCTCGGTGAAGGCAATATCGGTCATGATGCGTTCCGCTGGATCATGCAAGACGACCGTTTCGACGGCATTCCGCTGATCCTCGAAACCATCAACCCGGATATCTGGGCAGAAGAG > minE/1390545‑1390681
|
| 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
