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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,142,075 |
T→C |
32.6% |
T559A (ACG→GCG) |
asmA ← |
predicted assembly protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,142,075 | 0 | T | C | 32.6%
| 48.5
/ 36.9
| 43 | T559A (ACG→GCG) | asmA | predicted assembly protein |
| Reads supporting (aligned to +/- strand): ref base T (9/20); new base C (7/7); total (16/27) |
| Fisher's exact test for biased strand distribution p-value = 3.16e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
GTAACTGATCCACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGAATATCAAACTG > W3110S.gb/2142006‑2142141
|
gTAACTGATCCACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGtt < 1:2936076/71‑1 (MQ=255)
aCTGATCCACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTAATGGCGcttct > 1:833820/1‑71 (MQ=255)
gATCCACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGtttcttt > 1:866069/1‑70 (MQ=255)
ccACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAg > 1:2746850/1‑70 (MQ=255)
cACTTGCAGGGTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAgg > 1:142095/1‑70 (MQ=255)
cACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAgg < 1:860045/70‑1 (MQ=255)
cACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGa < 1:800913/71‑1 (MQ=255)
cACTTGCAGGCTGTAAATGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAgg < 1:473/70‑1 (MQ=255)
tGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGt > 1:1729774/1‑56 (MQ=255)
aGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAaatcaat < 1:3103740/71‑1 (MQ=255)
aGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAaatcaat < 1:262919/71‑1 (MQ=255)
tGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGt > 1:3146406/1‑71 (MQ=255)
ttGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAatcaatca < 1:3729123/64‑1 (MQ=255)
ttGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAatcaatca < 1:575892/64‑1 (MQ=255)
ttGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAatcaatca < 1:2906061/64‑1 (MQ=255)
ttGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAg < 1:878648/65‑1 (MQ=255)
tGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAatcaatca < 1:3481670/63‑1 (MQ=255)
gAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGtttct > 1:3801411/1‑46 (MQ=255)
gAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGtttct > 1:1067875/1‑46 (MQ=255)
gAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAg > 1:807948/1‑63 (MQ=255)
gAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGt > 1:443882/1‑64 (MQ=255)
gAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGt > 1:3705147/1‑64 (MQ=255)
aGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTc > 1:1775670/1‑68 (MQ=255)
ttGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCtt < 1:1680467/57‑1 (MQ=255)
ttGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCtt < 1:1540670/57‑1 (MQ=255)
tGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGTAATCAATCAGTTTGCt > 1:1532213/1‑55 (MQ=255)
tGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCt > 1:2480234/1‑55 (MQ=255)
tGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGcca > 1:1624086/1‑71 (MQ=255)
tGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGcca > 1:414019/1‑71 (MQ=255)
tGCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGcca > 1:1539158/1‑71 (MQ=255)
gCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAg < 1:2309469/48‑1 (MQ=255)
gCCATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGccac > 1:974628/1‑71 (MQ=255)
ccATAAACCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGt < 1:3179501/61‑1 (MQ=255)
aaCCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCtt > 1:3736283/1‑49 (MQ=255)
aaCCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACgc > 1:3256743/1‑70 (MQ=255)
aaCCCGCAGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGa > 1:395392/1‑71 (MQ=255)
cGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCg < 1:1120933/71‑1 (MQ=255)
cAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGaa < 1:2438259/71‑1 (MQ=255)
aGCGGTACTGGCGCTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGAat < 1:1803193/71‑1 (MQ=255)
gTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCg < 1:1969305/64‑1 (MQ=255)
tACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGc < 1:1134710/35‑1 (MQ=255)
tACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGAATATCaa < 1:3946787/71‑1 (MQ=255)
cTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCg < 1:3185329/61‑1 (MQ=255)
cTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCg < 1:832203/61‑1 (MQ=255)
gCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGtt < 1:3653440/40‑1 (MQ=255)
gCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGtt < 1:1938605/40‑1 (MQ=255)
gCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGAATATCAAACTg < 1:2795125/70‑1 (MQ=255)
gCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGAATATCAAACTg < 1:3424867/70‑1 (MQ=255)
gCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTGCCAGCCACCCACGACCCGAATATCAAACt < 1:2024987/69‑1 (MQ=255)
tttctttcAGGAAATCAATCAGTTTGCTTTCCCCGtt < 1:1893139/37‑1 (MQ=255)
|
GTAACTGATCCACTTGCAGGCTGTAATTGAGTTGCTGCCAGTTGCCATAAACCCGCAGCGGTACTGGCGTTTCTTTCAGGAAATCAATCAGTTTGCTTTCCCCGTTCCAGCCACCCACGACCCGAATATCAAACTG > W3110S.gb/2142006‑2142141
|
| 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
