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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,885,984 |
C→T |
100% |
intergenic (‑109/+250) |
ygcB ← / ← cysH |
conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,885,984 | 0 | C | T | 85.1%
| 167.6
/ 21.7
| 67 | intergenic (‑109/+250) | ygcB/cysH | conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
| Reads supporting (aligned to +/- strand): ref base C (10/0); new base T (32/25); total (42/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCT > W3110S.gb/2885924‑2886052
|
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga > 1:1168625/1‑69 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAagaaga > 1:3587222/1‑69 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTaaa > 1:2874149/1‑62 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTaa > 1:1681853/1‑61 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAagag > 1:1112659/1‑68 (MQ=255)
gctCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCg < 1:3581956/69‑1 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACCTTCGaa < 1:480809/68‑1 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGaa < 1:815402/68‑1 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGa < 1:2979922/67‑1 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGa < 1:1870292/67‑1 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAAt > 1:941593/1‑69 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAaagaa > 1:811051/1‑48 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAaagaa > 1:2139017/1‑48 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTa > 1:1130231/1‑55 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTa > 1:2007342/1‑55 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGtt > 1:1690541/1‑69 (MQ=255)
tatCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg < 1:3191690/69‑1 (MQ=255)
atCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg < 1:1941771/68‑1 (MQ=255)
tCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg < 1:1245909/67‑1 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCg < 1:2752518/56‑1 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt > 1:3147197/1‑64 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt > 1:3132458/1‑64 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt < 1:1447047/64‑1 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt < 1:2770111/64‑1 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt > 1:2600523/1‑64 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt < 1:236173/64‑1 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt > 1:1587138/1‑64 (MQ=255)
gAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGttt > 1:1603447/1‑64 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGa > 1:3490432/1‑69 (MQ=255)
tACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGaa > 1:3720176/1‑69 (MQ=255)
tACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGaa > 1:796997/1‑69 (MQ=255)
aGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg < 1:1395813/68‑1 (MQ=255)
aGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg < 1:1426293/68‑1 (MQ=255)
aGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg < 1:2918179/68‑1 (MQ=255)
gTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg < 1:1869044/67‑1 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGc > 1:716313/1‑69 (MQ=255)
atatACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGc > 1:210720/1‑69 (MQ=255)
ataCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGc > 1:3351379/1‑67 (MQ=255)
ataCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGc > 1:3202422/1‑67 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGATTTGTTTGGGTTCGAACGCTGGCCTc > 1:1944121/1‑69 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTc > 1:2556216/1‑69 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1265921/1‑45 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg > 1:1136463/1‑69 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg < 1:3668820/69‑1 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg > 1:1564156/1‑69 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg > 1:2191455/1‑69 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg < 1:2701896/69‑1 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg > 1:273226/1‑69 (MQ=255)
acaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg < 1:1699100/68‑1 (MQ=255)
acaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGACTCAg < 1:1616138/68‑1 (MQ=255)
tGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGt > 1:3656294/1‑42 (MQ=255)
tGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGtt > 1:2581193/1‑68 (MQ=255)
tGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGtt > 1:3168123/1‑68 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCAAACGCTGGCCTCAGGtt > 1:657709/1‑66 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCAAACGCTGGCCTCAGGtt > 1:1890462/1‑66 (MQ=255)
tCTTGCATCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGtt > 1:323590/1‑66 (MQ=255)
cTTGCCTCCCTGTAAAGAAGAGACTAAGATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGAt > 1:692951/1‑68 (MQ=255)
ttGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATa > 1:3317088/1‑68 (MQ=255)
ccTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa < 1:2554831/63‑1 (MQ=255)
ccTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa < 1:3445001/63‑1 (MQ=255)
ccTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTGCGAACGCTGGCCTCAGGTTGa < 1:3385129/63‑1 (MQ=255)
cTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:12442/66‑1 (MQ=255)
cTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:2727646/66‑1 (MQ=255)
tGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGc > 1:845981/1‑69 (MQ=255)
gCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa > 1:2872421/1‑60 (MQ=255)
gCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa > 1:3189592/1‑60 (MQ=255)
gCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa > 1:2544159/1‑60 (MQ=255)
cAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCt > 1:589635/1‑69 (MQ=255)
cAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCt > 1:854416/1‑69 (MQ=255)
|
TTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCT > W3110S.gb/2885924‑2886052
|
| 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
