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 |
|
A5 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,459,280 |
T→C |
10.2% |
E15G (GAA→GGA) |
secE ← |
preprotein translocase membrane subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,459,280 | 0 | T | C | 10.2%
| 154.9
/ 9.9
| 59 | E15G (GAA→GGA) | secE | preprotein translocase membrane subunit |
| Reads supporting (aligned to +/- strand): ref base T (30/23); new base C (2/4); total (32/27) |
| Fisher's exact test for biased strand distribution p-value = 3.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01 |
TCGCGATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTTTTCTAC > W3110S.gb/3459211‑3459349
|
tCGCGATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTc > 1:1946/1‑71 (MQ=255)
aTAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAgg < 1:1717606/70‑1 (MQ=255)
tAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGcc > 1:555207/1‑71 (MQ=255)
aaaGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGcc > 1:2060834/1‑70 (MQ=255)
aaaGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCcg > 1:2548613/1‑71 (MQ=255)
aaGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTc < 1:2796282/63‑1 (MQ=255)
gATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCa < 1:1802880/63‑1 (MQ=255)
tAGTTGCCGACAATGGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGcc > 1:1122826/1‑70 (MQ=255)
gCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCtt < 1:2668787/70‑1 (MQ=255)
cGACAATCGCCACCAGGAGCAATGCCACAACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCt > 1:661323/1‑71 (MQ=255)
gACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCtt < 1:1679342/71‑1 (MQ=255)
aCAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCtt < 1:4198473/70‑1 (MQ=255)
aCAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCtt > 1:2082801/1‑70 (MQ=255)
cAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCtt > 1:3453249/1‑69 (MQ=255)
cAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCtt > 1:248540/1‑69 (MQ=255)
cAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGa < 1:384720/71‑1 (MQ=255)
tCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGc < 1:3205012/60‑1 (MQ=255)
tCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCt > 1:62221/1‑71 (MQ=255)
cGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGc < 1:881339/59‑1 (MQ=255)
ccaccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCg > 1:3393180/1‑71 (MQ=255)
caccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCtt > 1:4075479/1‑68 (MQ=255)
caccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCgg < 1:2209972/71‑1 (MQ=255)
caccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCgg < 1:3719060/71‑1 (MQ=255)
ccaGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTcc < 1:530360/58‑1 (MQ=255)
aGGAGCAATGCCACCACAACGACCGACTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTAt > 1:3317972/1‑70 (MQ=255)
aGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCa < 1:3953255/40‑1 (MQ=255)
ggAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAg > 1:693501/1‑60 (MQ=255)
aGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCg > 1:2875511/1‑70 (MQ=255)
gCAATGCCACCACAACGACCCACTTCATCGCTTCCAg < 1:753265/37‑1 (MQ=255)
gCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTc > 1:1978194/1‑68 (MQ=255)
cAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCa > 1:1950929/1‑70 (MQ=255)
tGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCa < 1:3601694/71‑1 (MQ=255)
ccaccaCAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCTCa > 1:4254777/1‑65 (MQ=255)
ccaccaCAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATa < 1:715289/71‑1 (MQ=255)
ccaccaCAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATa < 1:3080148/71‑1 (MQ=255)
ccaccaCAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATa < 1:1802275/71‑1 (MQ=255)
accacAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATaaa > 1:3990353/1‑71 (MQ=255)
acaACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTc < 1:4179393/50‑1 (MQ=255)
acaACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaacc > 1:2975555/1‑70 (MQ=255)
caACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAg > 1:3073899/1‑45 (MQ=255)
caACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaacaac > 1:133142/1‑68 (MQ=255)
aCGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAaaccaacc > 1:266920/1‑71 (MQ=255)
aCGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTACTTGAGCTTCGGt > 1:4244893/1‑50 (MQ=255)
gACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTg > 1:1880577/1‑71 (MQ=255)
aCTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTAtt > 1:1809816/1‑46 (MQ=255)
aCTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGa < 1:2443669/71‑1 (MQ=255)
cTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTa < 1:2937870/43‑1 (MQ=255)
cTTCATCGCTCCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCAt < 1:2982277/54‑1 (MQ=255)
tCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGt > 1:1838715/1‑71 (MQ=255)
cATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTc > 1:104358/1‑64 (MQ=255)
cATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTc > 1:81955/1‑64 (MQ=255)
aTCGCTTCCAGGCCGCTCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGtt < 1:4028705/70‑1 (MQ=255)
aTCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGtt < 1:4039423/70‑1 (MQ=255)
aTCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGtt < 1:871599/70‑1 (MQ=255)
tCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGtttt < 1:815316/71‑1 (MQ=255)
tCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGttt > 1:2910282/1‑70 (MQ=255)
cGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTTTTc > 1:1025652/1‑71 (MQ=255)
gCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTTTTc < 1:224248/70‑1 (MQ=255)
gCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTTTTc > 1:3528378/1‑70 (MQ=255)
tCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTTTTCTAc > 1:407608/1‑70 (MQ=255)
|
TCGCGATAAAGATAGTTGCCGACAATCGCCACCAGGAGCAATGCCACCACAACGACCCACTTCATCGCTTCCAGGCCGCGCCCGCTTCCTTGAGCTTCGGTATTCGCACTCATAAACCAACCTGTCAGAAGTTTTCTAC > W3110S.gb/3459211‑3459349
|
| 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
