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 |
1,325,790 |
C→T |
35.7% |
E407E (GAG→GAA) |
wcaK ← |
predicted pyruvyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,325,790 | 0 | C | T | 35.7%
| 46.6
/ 36.0
| 67 | E407E (GAG→GAA) | wcaK | predicted pyruvyl transferase |
| Reads supporting (aligned to +/- strand): ref base C (19/24); new base T (9/15); total (28/39) |
| Fisher's exact test for biased strand distribution p-value = 6.17e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAACCAT > minE/1325728‑1325858
|
cTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGa > 1:1100955/1‑69 (MQ=255)
cTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGa > 1:2431438/1‑69 (MQ=255)
cTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGa > 1:3140069/1‑69 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:1681056/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:1950095/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:3001321/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:3052545/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:1526288/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:3425260/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:637596/68‑1 (MQ=255)
tCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCt < 1:136255/57‑1 (MQ=255)
tCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCt < 1:2280132/57‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:3288939/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:385639/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:2904518/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:2507002/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:551730/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:2101050/69‑1 (MQ=255)
tGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:1553656/44‑1 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:2757351/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:3065589/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:2455628/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:1681624/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:1804963/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:2038858/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:1809017/1‑48 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:219926/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:3279818/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:2850444/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:2812535/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:1029790/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:3408956/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:1876401/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:1127694/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:706214/1‑69 (MQ=255)
ttCCTGTCTGACGCTCACTACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCt < 1:2404167/65‑1 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa < 1:1925704/69‑1 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa > 1:3304678/1‑69 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa < 1:859209/69‑1 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa > 1:3178922/1‑69 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGACGGAAGCTGGCCTAAGGTa > 1:1520830/1‑69 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTAccc < 1:182495/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:571624/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:58148/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:929719/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:2260783/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:3016424/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:2890764/69‑1 (MQ=255)
gTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTAAGGTATcc < 1:2504157/69‑1 (MQ=255)
cTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTTGCCTAAGGTATCCGc > 1:1351866/1‑69 (MQ=255)
cTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc > 1:320986/1‑69 (MQ=255)
cTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc > 1:2383085/1‑69 (MQ=255)
cTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc > 1:1301265/1‑69 (MQ=255)
cTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc > 1:439813/1‑69 (MQ=255)
cTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc > 1:2690655/1‑69 (MQ=255)
tGACGCTCACGACTTACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:1974217/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:1177218/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:645918/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:642028/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:610278/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:304324/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:3394256/68‑1 (MQ=255)
tGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGc < 1:3383041/68‑1 (MQ=255)
gCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAAcc < 1:343588/68‑1 (MQ=255)
gCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAAcc < 1:896967/68‑1 (MQ=255)
gCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAAcc < 1:227244/68‑1 (MQ=255)
gCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAAcc < 1:937258/68‑1 (MQ=255)
ccTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAAcc < 1:245203/67‑1 (MQ=255)
cTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAACCAt < 1:1250490/69‑1 (MQ=255)
cTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAACCAt < 1:2702942/69‑1 (MQ=255)
|
CTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTATCCGCAACCAT > minE/1325728‑1325858
|
| 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
