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 |
1,325,781 |
T→C |
36.3% |
T410T (ACA→ACG) |
wcaK ← |
predicted pyruvyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,325,781 | 0 | T | C | 36.3%
| 23.5
/ 24.3
| 44 | T410T (ACA→ACG) | wcaK | predicted pyruvyl transferase |
| Reads supporting (aligned to +/- strand): ref base T (16/12); new base C (9/7); total (25/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
AGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTA > minE/1325721‑1325847
|
agCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACg > 1:2888094/1‑69 (MQ=255)
agCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACg > 1:2346645/1‑69 (MQ=255)
agCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACg > 1:1699070/1‑69 (MQ=255)
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 < 1:637596/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:3001321/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:3052545/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:1950095/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:3425260/68‑1 (MQ=255)
ttCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGAc < 1:1526288/68‑1 (MQ=255)
tCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCt < 1:2280132/57‑1 (MQ=255)
tCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCt < 1:136255/57‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:3288939/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:551730/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:2101050/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:385639/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:2904518/69‑1 (MQ=255)
cTCCCCGATGCGTTCAAGCACAGATTGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:2507002/69‑1 (MQ=255)
tGCACCATCTGCATTCCCGTCTGACGTTCGCGACTGACAGCTTc < 1:1553656/44‑1 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:3065589/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:2455628/1‑48 (MQ=255)
tGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCa > 1:2757351/1‑48 (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 > 1:2812535/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:706214/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:1127694/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:3408956/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:3279818/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:1876401/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:219926/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:1029790/1‑69 (MQ=255)
cATTCCCGTCTGACGTTCGCGACTGACAGCTTCGTTAAGTCGTGCGTTCAGCGCCGGAAGCTGGCCTaa > 1:2850444/1‑69 (MQ=255)
ttCCTGTCTGACGCTCACTACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCt < 1:2404167/65‑1 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa > 1:3178922/1‑69 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa > 1:3304678/1‑69 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa < 1:1925704/69‑1 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTa < 1:859209/69‑1 (MQ=255)
ccTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGACGGAAGCTGGCCTAAGGTa > 1:1520830/1‑69 (MQ=255)
|
AGCCGACCTTCATTTCACCTCCCCGATGCGCTCAAGCACAGACTGCACCATCTGCATTCCTGTCTGACGCTCACGACTGACGGCTTCACTAAGTCGCGCATTCAGCGCCGGAAGCTGGCCTAAGGTA > minE/1325721‑1325847
|
| 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
