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 |
3,915,033 |
T→C |
31.2% |
intergenic (+29/‑66) |
ysaB → / → glyQ |
hypothetical protein/glycine tRNA synthetase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,915,033 | 0 | T | C | 31.2%
| 82.7
/ 55.3
| 64 | intergenic (+29/‑66) | ysaB/glyQ | hypothetical protein/glycine tRNA synthetase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (20/24); new base C (8/12); total (28/36) |
| Fisher's exact test for biased strand distribution p-value = 7.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAATATGCA > W3110S.gb/3914967‑3915103
|
aCGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATc < 1:3023552/70‑1 (MQ=255)
aCGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCt < 1:2209655/71‑1 (MQ=255)
gcgGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtc < 1:4036000/71‑1 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:3314985/1‑71 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:4096296/1‑71 (MQ=255)
aTTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:2642391/1‑71 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccat < 1:4630467/63‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccat < 1:1754150/63‑1 (MQ=255)
ttttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccat < 1:2372657/63‑1 (MQ=255)
tttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTtccatcca > 1:3578575/1‑65 (MQ=255)
ttttGCATGTTTCCATGCGTTAAGCTCTGCTTTTTCCCGTTTCGTACTGTacat > 1:1431297/1‑54 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTacat > 1:2875569/1‑54 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:1787487/1‑71 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATc > 1:2667539/1‑55 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta > 1:1864590/1‑71 (MQ=255)
ttttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta > 1:2996543/1‑71 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:3941380/1‑70 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:3438760/70‑1 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:5038911/1‑70 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:1521399/70‑1 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta > 1:2311354/1‑70 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta < 1:2716401/70‑1 (MQ=255)
tttGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGta < 1:1794922/70‑1 (MQ=255)
gCATCTTTCCATGCGTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATAc > 1:718155/1‑70 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGtata < 1:4919944/67‑1 (MQ=255)
aTCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGtata < 1:1029262/67‑1 (MQ=255)
cTTTCCATGCGTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCggg < 1:653318/61‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:1378241/57‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:2695137/57‑1 (MQ=255)
cTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAg < 1:2289176/57‑1 (MQ=255)
tttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACt > 1:2865101/1‑66 (MQ=255)
ttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCtt > 1:1395177/1‑47 (MQ=255)
ttCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCg > 1:2240750/1‑57 (MQ=255)
tCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTAGTGTATATCTTCCATCCAGCGGGTATACTGATccc > 1:2125753/1‑70 (MQ=255)
gTTAAGCCTTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa < 1:1947958/71‑1 (MQ=255)
aaGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGtata > 1:3182458/1‑52 (MQ=255)
aaGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAAt > 1:1718781/1‑71 (MQ=255)
cTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGta < 1:3475198/45‑1 (MQ=255)
tGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTa < 1:3824334/62‑1 (MQ=255)
gCTTTTTCCCGTTTCGTATTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCca > 1:3520034/1‑67 (MQ=255)
gCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGc < 1:3583325/38‑1 (MQ=255)
gCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGc < 1:391563/38‑1 (MQ=255)
gCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGc < 1:639576/38‑1 (MQ=255)
gCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGc < 1:701590/38‑1 (MQ=255)
gCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGc < 1:1897285/38‑1 (MQ=255)
cTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTaa > 1:3737020/1‑61 (MQ=255)
cTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACg > 1:3660285/1‑70 (MQ=255)
cTTTTTCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGtata > 1:1259356/1‑44 (MQ=255)
tttttCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:794174/1‑38 (MQ=255)
tttttCCCGTTTCGTACTGTATATCTTCCATCCAGCgg > 1:2491649/1‑38 (MQ=255)
tttCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATc > 1:2880616/1‑71 (MQ=255)
ttCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCttt < 1:2841194/55‑1 (MQ=255)
ttCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCttt < 1:4771460/55‑1 (MQ=255)
ttCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCcaca > 1:4013416/1‑64 (MQ=255)
tCCCGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATc > 1:4357238/1‑69 (MQ=255)
ccGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAg < 1:195782/70‑1 (MQ=255)
ccGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAg < 1:4744929/70‑1 (MQ=255)
ccGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAg < 1:2925350/70‑1 (MQ=255)
ccGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAg < 1:763311/70‑1 (MQ=255)
ccGTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAg < 1:776746/70‑1 (MQ=255)
cGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAg < 1:2756310/69‑1 (MQ=255)
gTTTCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACTCGTATCCAg < 1:3581452/68‑1 (MQ=255)
tttCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATc < 1:4814218/64‑1 (MQ=255)
tttCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATc < 1:4541050/64‑1 (MQ=255)
tttCGTACTGTACATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCAc > 1:3622412/1‑70 (MQ=255)
tGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCttt < 1:3225827/41‑1 (MQ=255)
tataTCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTaa > 1:2548691/1‑41 (MQ=255)
atatCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAATATg > 1:4939881/1‑70 (MQ=255)
tatCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAATATGCa < 1:32681/71‑1 (MQ=255)
tatCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAATATGCa < 1:676293/71‑1 (MQ=255)
|
ACGCGGATGGCCATTTTTTGCATCTTTCCATGCGTTAAGCCCTGCTTTTTCCCGTTTCGTACTGTATATCTTCCATCCAGCGGGTATACTGATCCCTTCCTTTAAATCCACACGTATCCAGCACGAAATAATATGCA > W3110S.gb/3914967‑3915103
|
| 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
