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 |
1,339,849 |
G→A |
36.5% |
T276T (ACC→ACT) |
wcaC ← |
predicted glycosyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,339,849 | 0 | G | A | 36.5%
| 44.6
/ 41.6
| 71 | T276T (ACC→ACT) | wcaC | predicted glycosyl transferase |
| Reads supporting (aligned to +/- strand): ref base G (9/36); new base A (9/17); total (18/53) |
| Fisher's exact test for biased strand distribution p-value = 2.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.37e-01 |
TTTGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTT > minE/1339786‑1339905
|
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1926941/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2616364/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2690455/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2588202/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2403325/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2382556/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2820324/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2927724/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2274767/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:3359774/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:3372159/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:3385653/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1845661/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1825013/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1727068/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:76818/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:882292/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:780535/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1484908/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1718429/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:730524/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1515948/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:604868/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:1669200/69‑1 (MQ=255)
tttGTCGGTTTCAAAGCCGTGATTAACCACGTTGACAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:2872067/69‑1 (MQ=255)
ttCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCa > 1:326623/1‑67 (MQ=255)
ttCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAAt > 1:1278472/1‑69 (MQ=255)
aTTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCa > 1:1224751/1‑68 (MQ=255)
aTTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAg > 1:1586361/1‑69 (MQ=255)
aTTAACAACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAg > 1:443180/1‑69 (MQ=255)
aaCCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATg < 1:3009481/45‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:2885540/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:1194619/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:2771869/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:2693189/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:811581/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:1413812/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:1492647/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:2368874/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:232310/69‑1 (MQ=255)
cGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTa < 1:1649917/69‑1 (MQ=255)
gAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAg > 1:2710428/1‑69 (MQ=255)
gAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAg > 1:1514855/1‑69 (MQ=255)
gAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAg > 1:3328843/1‑69 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:983302/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:1011143/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:1615416/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:446969/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:3372693/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2125855/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2157958/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:215852/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2600901/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2966518/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2342415/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:3162967/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2409273/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2744914/68‑1 (MQ=255)
cGGCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2526104/68‑1 (MQ=255)
ggCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGtt < 1:2865821/67‑1 (MQ=255)
gCGAGAACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACGAGtt < 1:2686486/66‑1 (MQ=255)
gCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGt > 1:2027649/1‑59 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:566260/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:968607/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:87173/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:1255864/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:502891/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:2090680/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:3000634/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCACCAGTTGCTGCtt > 1:3065182/1‑69 (MQ=255)
gaACTTACCGAAAGTATGCAGTTCGATTTTGTCGCTCAGCGCCATCATCTCGCGCAACAGTTGCTGCtt > 1:2306874/1‑69 (MQ=255)
|
TTTGTCGGTTTCAAAGCCGTGATTAACCACGTTGCCAGCGGTGAACGGCGAGAACTTACCAAAGGTATGCAGTTCAATTTTGTCGCCCAGCGCCATCATCTCGCGTACCAGTTGCTGGTT > minE/1339786‑1339905
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
