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 |
931,645 |
T→C |
31.1% |
I191V (ATA→GTA) |
yddG ← |
predicted methyl viologen efflux pump |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 931,645 | 0 | T | C | 31.1%
| 65.2
/ 37.4
| 77 | I191V (ATA→GTA) | yddG | predicted methyl viologen efflux pump |
| Reads supporting (aligned to +/- strand): ref base T (38/15); new base C (6/18); total (44/33) |
| Fisher's exact test for biased strand distribution p-value = 1.73e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGCATAAGCAAATCCTAAGGTAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAC > minE/931579‑931705
|
cagcaTAAGCAAATCCTAAGGTAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCa > 1:2035728/1‑69 (MQ=255)
cagcaTAAGCAAATCCTAAGGTAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCa > 1:3026087/1‑69 (MQ=255)
cagaaTAAGCAAATCCTAAGGTAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCa > 1:960868/1‑69 (MQ=255)
tAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGaa < 1:1951561/69‑1 (MQ=255)
tAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGaa < 1:3419719/69‑1 (MQ=255)
tAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGaa < 1:770760/69‑1 (MQ=255)
tAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGaa < 1:706429/69‑1 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAAt > 1:48857/1‑66 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATa > 1:337048/1‑67 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAg > 1:1425446/1‑68 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAg > 1:692968/1‑68 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAg > 1:1005065/1‑68 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAg > 1:814129/1‑68 (MQ=255)
ccGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAg > 1:3348907/1‑68 (MQ=255)
acGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAg > 1:1517952/2‑68 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:2233779/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:2537602/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:2205859/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:3087883/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:3108513/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:3292892/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:2074635/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:2728369/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:3328804/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:188738/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:1868001/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:377343/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:1806323/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:1635869/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:645106/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:1214176/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATTTCTGGt < 1:1190779/41‑1 (MQ=255)
tGAGTTTAATCATGACGGGCGTGCTAAATACCATATCTGGt < 1:436358/41‑1 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:3310420/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:386506/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:452916/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:2723888/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:1073570/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:1384425/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:1500221/1‑69 (MQ=255)
gAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg > 1:2183203/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa < 1:1859440/69‑1 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:642609/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa < 1:536331/69‑1 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:531451/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa < 1:1666495/69‑1 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:2492265/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:1876001/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:201680/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:2036988/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa > 1:2150697/1‑69 (MQ=255)
aGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGa < 1:27612/69‑1 (MQ=255)
tttAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGaa > 1:242466/1‑50 (MQ=255)
ttAATCATGACGGGCGTGCTAAATACCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACtt > 1:903691/1‑69 (MQ=255)
ttAATCATGACGGGCGTGCTAAATACCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACtt > 1:1240082/1‑69 (MQ=255)
ttAATCATGACGGGCGTGCTAAATACCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACtt > 1:193424/1‑69 (MQ=255)
ttAATCATGACGGGCGTGCTAAATACCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACtt > 1:393691/1‑69 (MQ=255)
ttAATCATGACGGGCGTGCTAAATACCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACtt > 1:397672/1‑69 (MQ=255)
ttAATCATGACGGGCGTGCTAAATACCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACtt > 1:409392/1‑69 (MQ=255)
gACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGt < 1:1394433/69‑1 (MQ=255)
gACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGt < 1:2246635/69‑1 (MQ=255)
gACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGt < 1:3041162/69‑1 (MQ=255)
gggCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAg < 1:2483470/69‑1 (MQ=255)
gggCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAg < 1:852930/69‑1 (MQ=255)
gTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAgg < 1:731814/69‑1 (MQ=255)
gTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACACACAGACTTGCTCCCGTTAGCAgg < 1:3187167/69‑1 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTa > 1:2026973/1‑38 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:1719340/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:1723745/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:2961209/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:1831256/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:3045380/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:3373461/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:2426667/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:773600/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:1119961/1‑68 (MQ=255)
cTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAc > 1:2090210/1‑68 (MQ=255)
tCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAg < 1:3293418/40‑1 (MQ=255)
|
CAGCATAAGCAAATCCTAAGGTAAATGCCGCAGAGATGAGTTTAATCATGACGGGCGTGCTAAATATCATTTCTGGTTGTGGCGTAAGAAAATAGTAAACCCACAGACTTGCTCCCGTTAGCAGGAC > minE/931579‑931705
|
| 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
