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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
647,863 |
A→G |
25.5% |
M311T (ATG→ACG) |
citF ← |
citrate lyase, citrate‑ACP transferase (alpha) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 647,863 | 0 | A | G | 25.5%
| 79.1
/ 29.3
| 47 | M311T (ATG→ACG) | citF | citrate lyase, citrate‑ACP transferase (alpha) subunit |
| Reads supporting (aligned to +/- strand): ref base A (18/17); new base G (2/10); total (20/27) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGCATGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAGGA > W3110S.gb/647795‑647932
|
cagcaTGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtc < 1:3590723/71‑1 (MQ=255)
cagcaTGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtc > 1:2320523/1‑71 (MQ=255)
gcaTGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtcgt > 1:1655783/1‑71 (MQ=255)
aTGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCGtcgtcg > 1:4183566/1‑71 (MQ=255)
aTGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtcgtcg > 1:1178802/1‑71 (MQ=255)
tGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCAtcgtc > 1:3842208/1‑69 (MQ=255)
tGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgc > 1:2739157/1‑71 (MQ=255)
gCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgcg < 1:1094397/70‑1 (MQ=255)
gCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgcg < 1:3822582/70‑1 (MQ=255)
gCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTcgcg < 1:4311493/70‑1 (MQ=255)
gCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCgg > 1:3839951/1‑71 (MQ=255)
tCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTaa < 1:4456902/70‑1 (MQ=255)
ctctGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGcc < 1:2180689/71‑1 (MQ=255)
tGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCa < 1:1430540/69‑1 (MQ=255)
gcagTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCaa > 1:2451247/1‑60 (MQ=255)
gcagTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCaa > 1:1400574/1‑60 (MQ=255)
tttGCGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGt < 1:1604637/45‑1 (MQ=255)
tttGCGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGt < 1:1121511/45‑1 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg < 1:4762047/70‑1 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg < 1:3972511/70‑1 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTaa > 1:4772470/1‑45 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAAt > 1:1489057/1‑46 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg > 1:2189854/1‑70 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg > 1:1960387/1‑70 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg > 1:2345680/1‑70 (MQ=255)
tGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg > 1:1718966/1‑70 (MQ=255)
gCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg < 1:2092024/69‑1 (MQ=255)
cGGATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGaa < 1:4984017/70‑1 (MQ=255)
gATCAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTa < 1:4743626/40‑1 (MQ=255)
gATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAatat < 1:3625094/71‑1 (MQ=255)
gATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAatat < 1:2641309/71‑1 (MQ=255)
cAGACCTTTTTCGTGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATcgc > 1:3831733/1‑71 (MQ=255)
aGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGt < 1:1410519/35‑1 (MQ=255)
gACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAgg > 1:3099939/1‑47 (MQ=255)
gACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAgg > 1:3435107/1‑47 (MQ=255)
gACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAgg > 1:4718718/1‑47 (MQ=255)
ttttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGcgcg < 1:3335140/56‑1 (MQ=255)
ttttCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCt < 1:3790173/68‑1 (MQ=255)
tGCAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGgcgct < 1:3348175/50‑2 (MQ=255)
gCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAata > 1:1575180/1‑53 (MQ=255)
cAGGTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAata < 1:3882266/52‑1 (MQ=255)
ggTCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCt < 1:3938551/71‑1 (MQ=255)
gTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATc < 1:1331977/51‑1 (MQ=255)
tCAACCGTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTc < 1:2730510/71‑1 (MQ=255)
cATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAGGa < 1:2383577/71‑1 (MQ=255)
cATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAGGa < 1:2550288/71‑1 (MQ=255)
cATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAGGa < 1:3813398/71‑1 (MQ=255)
aTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTAc > 1:4528504/1‑52 (MQ=255)
aTCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTAc > 1:3773932/1‑52 (MQ=255)
|
CAGCATGGCTGTCAAAGCTCTGCACATCCAGCAGTTTGCGGATCAGACCTTTTTCGTGCAGGTCAACCATCGTCGCGGTAATACCGCCAAGGGCGAAGTCGGCGCGAATATCGCGGCTACGCATTTTGTCTTCCAGGA > W3110S.gb/647795‑647932
|
| 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
