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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,135,166 |
A→G |
68.8% |
intergenic (‑139/+153) |
pitB ← / ← gss |
phosphate transporter/fused glutathionylspermidine amidase and glutathionylspermidine synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,135,166 | 0 | A | G | 68.8%
| 89.1
/ 52.5
| 64 | intergenic (‑139/+153) | pitB/gss | phosphate transporter/fused glutathionylspermidine amidase and glutathionylspermidine synthetase |
| Reads supporting (aligned to +/- strand): ref base A (15/5); new base G (21/23); total (36/28) |
| Fisher's exact test for biased strand distribution p-value = 5.79e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAAATATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATATGAAATGAATA > W3110S.gb/3135098‑3135230
|
gAAATATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCaaa < 1:1383872/69‑1 (MQ=255)
gAAATATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCaaa > 1:3465238/1‑69 (MQ=255)
gAAATATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCaaa > 1:42728/1‑69 (MQ=255)
gAAATATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCaaa < 1:489854/69‑1 (MQ=255)
aaTATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGAc > 1:3119807/1‑69 (MQ=255)
tCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGAcc > 1:3325539/1‑66 (MQ=255)
tCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAAcc > 1:1662590/1‑66 (MQ=255)
tCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAAcc > 1:1757957/1‑66 (MQ=255)
aTTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTa > 1:914762/1‑68 (MQ=255)
tttttAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGa < 1:3456865/68‑1 (MQ=255)
tttttAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGa < 1:378573/68‑1 (MQ=255)
ttAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAaat < 1:1984177/68‑1 (MQ=255)
cGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATc < 1:2691042/68‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATc < 1:3115874/67‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaa < 1:2082819/69‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaa < 1:2157246/69‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaa < 1:1318150/69‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaa < 1:81813/69‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCa < 1:176161/68‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCa < 1:2391731/68‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCaa < 1:2751882/69‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCa < 1:550930/68‑1 (MQ=255)
gATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCa < 1:417768/68‑1 (MQ=255)
aTAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaaa < 1:1945226/69‑1 (MQ=255)
tAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaaaa < 1:569598/69‑1 (MQ=255)
aaaaaGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCaaaa > 1:1929705/1‑68 (MQ=255)
aaaaaGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCaaaa > 1:677367/1‑68 (MQ=255)
tttgtTATTTTTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGt > 1:3489959/3‑69 (MQ=255)
ttATTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTc < 1:3189559/69‑1 (MQ=255)
aTTTGTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAgg > 1:17262/1‑62 (MQ=255)
aTTTCTTGTGTATCAGACAATAAGCATTCATTCaaa < 1:710389/36‑1 (MQ=255)
aTTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAgg > 1:1018239/1‑62 (MQ=255)
aTTTCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTCCa > 1:863888/1‑69 (MQ=255)
aTTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAgg > 1:2466477/1‑62 (MQ=255)
aTTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAgg > 1:2454787/1‑62 (MQ=255)
aTTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAgg > 1:1988065/1‑62 (MQ=255)
tttCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAGGTATTc > 1:2461815/1‑66 (MQ=255)
tttCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAGGTATTc > 1:2623572/1‑66 (MQ=255)
tttCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAGGTATTc > 1:3158795/1‑66 (MQ=255)
ttCTTGTGTATCAGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTc < 1:3660865/65‑1 (MQ=255)
cAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAgg > 1:2569256/1‑49 (MQ=255)
aGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTc > 1:1721078/1‑53 (MQ=255)
aGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTc > 1:3708262/1‑53 (MQ=255)
aGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTc > 1:2220787/1‑53 (MQ=255)
aGACAATAAGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTc > 1:188384/1‑53 (MQ=255)
aGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCa > 1:826848/1‑39 (MQ=255)
aGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCa > 1:97531/1‑39 (MQ=255)
aGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCa > 1:2132067/1‑39 (MQ=255)
aaTAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTcaca > 1:541399/1‑69 (MQ=255)
aaGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGt < 1:1320343/42‑1 (MQ=255)
aaGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGt > 1:1902896/1‑42 (MQ=255)
aaGCATTCATTCAAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTaa < 1:1177423/56‑1 (MQ=255)
tcattcaAGACCTTTAGAAATAATCAAAACACAgg < 1:1583480/35‑1 (MQ=255)
tcattcaAGACCTTTAGAAATAATCAAAACACAgg < 1:1602181/35‑1 (MQ=255)
tcattcaAGACCTTTAGAAATAATCAAAACACAgg < 1:725472/35‑1 (MQ=255)
tcattcaAGACCTTTAGAAATAATCAAAACACAgg < 1:626386/35‑1 (MQ=255)
tcattcaAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATatgaaatg > 1:2007942/1‑69 (MQ=255)
tcattcaAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATatgaaatg > 1:3242729/1‑69 (MQ=255)
cattcaAGACCTTTAGAAATAATCAAAACACAGGTAt < 1:2787402/37‑1 (MQ=255)
cattcaAGACCTTTAGAAATAATCAAAACACAGGTAt < 1:1331321/37‑1 (MQ=255)
cattcaAGACCTTTAGAAATAATCAAAACACAGGTAt < 1:2321836/37‑1 (MQ=255)
cattcaAGACCTTTAGAAATAATCAAAACACAGGTATTcc > 1:1991506/1‑40 (MQ=255)
cattcaAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATatgaaatg > 1:1772349/1‑68 (MQ=255)
tcaAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATATGAAATGaata > 1:1982090/1‑69 (MQ=255)
tcaAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATATGAAATGaata > 1:2600584/1‑69 (MQ=255)
tcaAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATATGAAATGaata > 1:3067467/1‑69 (MQ=255)
caAGACCTTTAGAAATAATCAAAACACAGGTATTCCACt < 1:2864152/39‑1 (MQ=255)
caAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTcaca > 1:2229433/1‑55 (MQ=255)
caAGACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTcaca > 1:2233667/1‑55 (MQ=255)
|
GAAATATCATTTTTTAACGATAAAAAGAGTGTTATTTCTTGTGTATCAGACAATAAGCATTCATTCAAAACCTTTAGAAATAATCAAAACACAGGTATTCCACTGGTTAATATATTCACATATGAAATGAATA > W3110S.gb/3135098‑3135230
|
| 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
