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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,292,617 |
A→G |
56.6% |
intergenic (+168/‑253) |
fsaB → / → gldA |
fructose‑6‑phosphate aldolase 2/glycerol dehydrogenase, NAD |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,292,617 | 0 | A | G | 56.6%
| 20.1
/ 58.2
| 53 | intergenic (+168/‑253) | fsaB/gldA | fructose‑6‑phosphate aldolase 2/glycerol dehydrogenase, NAD |
| Reads supporting (aligned to +/- strand): ref base A (9/14); new base G (18/12); total (27/26) |
| Fisher's exact test for biased strand distribution p-value = 1.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
TTAGCCGCACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGCATGG > minE/2292551‑2292680
|
ttaGCCGCACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACgg > 1:478875/1‑71 (MQ=255)
aGCCGCACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCa > 1:109277/1‑71 (MQ=255)
gCCGCACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCAt > 1:4643989/1‑71 (MQ=255)
gCCGCACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCAt > 1:4666674/1‑71 (MQ=255)
cACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCg > 1:3221493/1‑70 (MQ=255)
aCTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTa < 1:4906419/71‑1 (MQ=255)
cTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTa < 1:3646243/70‑1 (MQ=255)
tGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCAtt < 1:2752864/65‑1 (MQ=255)
ggCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACgg > 1:2838524/1‑71 (MQ=255)
ggCAGCGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACgg > 1:4159584/1‑71 (MQ=255)
aGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGtt > 1:4577520/1‑70 (MQ=255)
aGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCg < 1:2094635/63‑1 (MQ=255)
ggCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCg < 1:979456/60‑1 (MQ=255)
ggCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCg < 1:2332234/60‑1 (MQ=255)
gCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGa < 1:4911629/71‑1 (MQ=255)
cAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAg > 1:626140/1‑71 (MQ=255)
cAAAATACGTTGCTCCGTATGTTAACCGCGTAGATACCCAGGGCGGAGACGGCATTCGTAc > 1:2389305/1‑61 (MQ=255)
aaaaTACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGc > 1:755387/1‑71 (MQ=255)
aTACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTg > 1:1216046/1‑70 (MQ=255)
aTACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTg > 1:4847586/1‑70 (MQ=255)
aTACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTg > 1:3129281/1‑70 (MQ=255)
aTACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTa > 1:2180586/1‑56 (MQ=255)
cGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGc > 1:291062/1‑68 (MQ=255)
cGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGc > 1:4692160/1‑68 (MQ=255)
ttGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACg < 1:1335719/71‑1 (MQ=255)
ttGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACg < 1:16130/71‑1 (MQ=255)
cGTATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGtt < 1:423262/70‑1 (MQ=255)
tATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTg < 1:2054000/57‑1 (MQ=255)
tATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGa < 1:5455793/71‑1 (MQ=255)
tATGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGa < 1:1464674/71‑1 (MQ=255)
aTGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGa > 1:4035308/1‑70 (MQ=255)
tGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTc < 1:1839936/47‑1 (MQ=255)
tGTTAACCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGaa < 1:1549424/70‑1 (MQ=255)
tAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATg > 1:1766121/1‑70 (MQ=255)
aaCCGCGTAGATGCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGc < 1:3450464/70‑1 (MQ=255)
aaCCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCa > 1:3774002/1‑71 (MQ=255)
cgcgTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCAcgc < 1:1656347/71‑1 (MQ=255)
cgcgTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCAcgc < 1:1545815/71‑1 (MQ=255)
gATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGaa < 1:2614963/57‑1 (MQ=255)
gATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGaa < 1:3746414/57‑1 (MQ=255)
gATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGaa < 1:5138819/57‑1 (MQ=255)
tGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGaa > 1:3683462/1‑55 (MQ=255)
gCCCAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGaaa > 1:2227303/1‑55 (MQ=255)
cccAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGa < 1:3344495/52‑1 (MQ=255)
ccAGGGCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGCa > 1:5190117/1‑71 (MQ=255)
ccAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGc < 1:3146835/70‑1 (MQ=255)
ggCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGCATgg < 1:3948223/70‑1 (MQ=255)
ggCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGCATg > 1:2786859/1‑69 (MQ=255)
ggCGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGCATg > 1:5219773/1‑69 (MQ=255)
cGGAGACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGtt > 1:871882/1‑42 (MQ=255)
cGGAGACGGCATTAGTACGGTTCAGGAGCTGCAAACGCTGtt > 1:4125054/1‑42 (MQ=38)
cGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAg < 1:5255884/59‑1 (MQ=255)
cGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAg < 1:2912937/59‑1 (MQ=255)
|
TTAGCCGCACTGGCAGGGGCAAAATACGTTGCTCCGTATGTTAACCGCGTAGATGCCCAGGGCGGAAACGGCATTCGTACGGTTCAGGAGCTGCAAACGCTGTTAGAAATGCACGCGCCAGAAAGCATGG > minE/2292551‑2292680
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
