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 |
2,137,325 |
G→A |
49.2% |
T182T (ACC→ACT) |
truB ← |
tRNA pseudouridine synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,137,325 | 0 | G | A | 49.2%
| ‑2.0
/ 59.0
| 67 | T182T (ACC→ACT) | truB | tRNA pseudouridine synthase |
| Reads supporting (aligned to +/- strand): ref base G (3/31); new base A (18/15); total (21/46) |
| Fisher's exact test for biased strand distribution p-value = 5.95e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.33e-01 |
GACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCG > minE/2137264‑2137387
|
gACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGa < 1:2423797/69‑1 (MQ=255)
gACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGa < 1:968483/69‑1 (MQ=255)
ggCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGatat < 1:1082734/69‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGatat < 1:2261311/68‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGatat < 1:1746818/68‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:2297205/69‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:2173170/69‑1 (MQ=255)
gcgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:166751/69‑1 (MQ=255)
cgcAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGAtata < 1:1760907/68‑1 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:355264/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:2788442/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:3134899/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1099491/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:3160136/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1292105/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:3308389/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1338693/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:194312/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:582229/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1886243/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1876516/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1363783/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:1453502/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:658112/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTGCGGATATAAGTGCCTTTTg > 1:749617/1‑69 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCGTCAATGATAGTCCGGATATAAGTCCCtttt > 1:611783/1‑68 (MQ=255)
tAACATGCGCGCCACAACCGAGTTTTTCGCCGAGATCCTCAATGATAGTGCGGATAAAAGTGCCTTTTg > 1:3351491/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:882267/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg > 1:991624/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:315293/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg > 1:1065793/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg > 1:3088524/1‑69 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:793578/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:1095463/69‑1 (MQ=255)
cgcgcCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTg < 1:2206041/69‑1 (MQ=255)
caGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtcc < 1:2040328/69‑1 (MQ=255)
caGCCGAGTTTTTCACCCAGGGCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtcc < 1:2767693/69‑1 (MQ=255)
ccGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtccagc < 1:890786/69‑1 (MQ=255)
ccGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtccagc < 1:3264520/69‑1 (MQ=255)
aCCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCAt < 1:188888/68‑1 (MQ=255)
aGGTCATCAATGATGGTGCGGTTATAAGTGCCTTTTGAGCAGTGTTTTtcc < 1:437214/51‑1 (MQ=255)
ggTCATCAATGATGGTGCTGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:2847361/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:1700469/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:2747634/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:954193/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:860468/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:1597362/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:3075196/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:2666655/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:2704888/69‑1 (MQ=255)
ggTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCtt < 1:2294807/69‑1 (MQ=255)
gTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTtcc < 1:2369379/49‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:855015/66‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:1374887/66‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:237570/66‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:1551478/66‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:755335/66‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:1636474/66‑1 (MQ=255)
tcgtcaATGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCa < 1:652050/66‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:3187561/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:444869/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:861462/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:1525028/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:884066/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:611364/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:989011/69‑1 (MQ=255)
aaTGATAGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:540902/69‑1 (MQ=255)
gataGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCg < 1:2005173/66‑1 (MQ=255)
|
GACGGCGCAGGTAAATAACATGCGCGCCACAGCCGAGTTTTTCACCCAGGTCATCAATGATGGTGCGGATATAAGTGCCTTTTGAGCAGTGAATTTCCAGCTCCAGCTCATTGCCTTCATGGCG > minE/2137264‑2137387
|
| 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
