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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,103,846 |
T→C |
22.7% |
Y5H (TAC→CAC) |
ompR → |
DNA‑binding response regulator in two‑component regulatory system with EnvZ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,103,846 | 0 | T | C | 22.7%
| 145.5
/ 43.3
| 75 | Y5H (TAC→CAC) | ompR | DNA‑binding response regulator in two‑component regulatory system with EnvZ |
| Reads supporting (aligned to +/- strand): ref base T (36/22); new base C (9/8); total (45/30) |
| Fisher's exact test for biased strand distribution p-value = 5.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
AGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACAAG > W3110S.gb/4103778‑4103915
|
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTa > 1:1204097/1‑70 (MQ=255)
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTa > 1:3493733/1‑70 (MQ=255)
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTa > 1:355330/1‑70 (MQ=255)
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTa > 1:897473/1‑70 (MQ=255)
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTa > 1:3782704/1‑70 (MQ=255)
aGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTa > 1:3884705/1‑70 (MQ=255)
ttttAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGa < 1:1430120/70‑1 (MQ=255)
ttttAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGAt > 1:921706/1‑71 (MQ=255)
tAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAAAGCAAGAGAACTACAAGATTc < 1:1787134/70‑1 (MQ=255)
cacGCTTACAAATTGTTGGGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:4077879/1‑70 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCtg > 1:3552604/1‑64 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTggtggt > 1:123544/1‑69 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:2353049/1‑70 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc < 1:3548081/70‑1 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:82094/1‑70 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:1013224/1‑70 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:1858048/1‑70 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc < 1:142689/70‑1 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:1612851/1‑70 (MQ=255)
cacGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTc > 1:907735/1‑70 (MQ=255)
cGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGAt < 1:2162238/71‑1 (MQ=255)
cTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTc < 1:1281255/66‑1 (MQ=255)
tACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgac > 1:2270468/1‑70 (MQ=255)
tACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGa > 1:3698/1‑66 (MQ=255)
tACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGa > 1:3054623/1‑66 (MQ=255)
tACAAATTGTT‑CGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGa > 1:3026582/1‑65 (MQ=255)
aCAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgac < 1:72562/69‑1 (MQ=255)
tcttgttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:3088741/67‑1 (MQ=255)
aaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACAt > 1:3470809/1‑71 (MQ=255)
aaTTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACAt > 1:1485019/1‑71 (MQ=255)
gttgCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:457413/65‑1 (MQ=255)
cGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtg < 1:451899/70‑1 (MQ=255)
cGAACCTTTGGGAGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCtg < 1:1341848/70‑1 (MQ=255)
gAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcg < 1:3783376/71‑1 (MQ=255)
gAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcg < 1:167626/71‑1 (MQ=255)
gAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcg < 1:2424997/71‑1 (MQ=255)
ccTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTc < 1:645225/40‑1 (MQ=255)
ccTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCg < 1:2883406/49‑1 (MQ=255)
ccTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCg < 1:467261/49‑1 (MQ=255)
ttGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACAt > 1:2238913/1‑56 (MQ=255)
ttGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACAt > 1:2989936/1‑56 (MQ=255)
ttGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCtgcg > 1:3892082/1‑65 (MQ=255)
aGTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTgg < 1:3623795/71‑1 (MQ=255)
gTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgaa < 1:697942/48‑2 (MQ=255)
gTACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTgg > 1:3379137/1‑70 (MQ=255)
tACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:3749935/47‑1 (MQ=255)
tACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATgacgac < 1:754345/47‑1 (MQ=255)
tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACAt < 1:3741231/49‑1 (MQ=255)
tACAAACAATGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACAt < 1:1926093/49‑1 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTggtggt > 1:3156640/1‑35 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATgac > 1:3510133/1‑42 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg > 1:1071540/1‑71 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg > 1:2069205/1‑71 (MQ=255)
caaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg > 1:2495389/1‑71 (MQ=255)
caaacaaTGCAAGACAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACg > 1:2101537/1‑71 (MQ=255)
aaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCgctg < 1:3532998/62‑1 (MQ=255)
aaacaaTGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCgctg < 1:3044147/62‑1 (MQ=255)
caaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTa > 1:3277977/1‑70 (MQ=255)
caaTGCAAGAGAACCACAAGATTCTGGTGGTCCATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTa > 1:2292174/1‑70 (MQ=255)
aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtc > 1:124136/1‑71 (MQ=255)
aaTGCAAGAGAACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAtc > 1:2014590/1‑71 (MQ=255)
cAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc > 1:2657112/1‑71 (MQ=255)
cAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc > 1:3927170/1‑71 (MQ=255)
cAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCAc > 1:2684501/1‑71 (MQ=255)
gagaACCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCg > 1:3481481/1‑70 (MQ=255)
agaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGaa > 1:1319950/1‑71 (MQ=255)
gaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAAc < 1:2078177/71‑1 (MQ=255)
gaACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAAc < 1:1368596/71‑1 (MQ=255)
aaCCACAAGATTCTGGTGGTCTATGACGACATGCGCCTGCTTGCGCTGCTGGAACGTTATCTCACCGAACa < 1:2395806/71‑1 (MQ=255)
aaCCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACa < 1:2726200/71‑1 (MQ=255)
aaCCACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACa < 1:3426862/71‑1 (MQ=255)
cTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACAAg > 1:2574206/1‑71 (MQ=255)
cTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACAAg > 1:2426192/1‑71 (MQ=255)
cTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACAAg > 1:3047949/1‑71 (MQ=255)
cTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACAAg > 1:3507511/1‑71 (MQ=255)
tACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTAt < 1:2049023/57‑1 (MQ=255)
|
AGCTTTTTTAAGAATACACGCTTACAAATTGTTGCGAACCTTTGGGAGTACAAACAATGCAAGAGAACTACAAGATTCTGGTGGTCGATGACGACATGCGCCTGCGTGCGCTGCTGGAACGTTATCTCACCGAACAAG > W3110S.gb/4103778‑4103915
|
| 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
