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 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,066,786 |
C→T |
100% |
intergenic (+144/‑129) |
asd → / → glgB |
aspartate‑semialdehyde dehydrogenase, NAD(P)‑binding/1,4‑alpha‑glucan branching enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,066,786 | 0 | C | T | 96.9%
| 188.8
/ ‑1.7
| 65 | intergenic (+144/‑129) | asd/glgB | aspartate‑semialdehyde dehydrogenase, NAD(P)‑binding/1,4‑alpha‑glucan branching enzyme |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (25/38); total (26/39) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AGTTAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGCCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCAAAAA > W3110S.gb/4066729‑4066849
|
aGTTAAATATAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:838458/71‑1 (MQ=255)
aGTTAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:2962134/71‑1 (MQ=255)
aGTTAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:3619707/71‑1 (MQ=255)
gTTAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:1070800/70‑1 (MQ=255)
ttAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:1878422/69‑1 (MQ=255)
ttAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:2475204/69‑1 (MQ=255)
ttAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:1551476/69‑1 (MQ=255)
ttAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:3662748/69‑1 (MQ=255)
ttAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:232877/69‑1 (MQ=255)
ttAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTg < 1:1914089/69‑1 (MQ=255)
aaaTAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAg > 1:2642045/1‑69 (MQ=255)
aaaTAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAg > 1:372630/1‑69 (MQ=255)
aaaTAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGga > 1:505165/1‑71 (MQ=255)
aaaTAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGga > 1:2539151/1‑71 (MQ=255)
tAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCtt < 1:200583/54‑1 (MQ=255)
tAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCtt < 1:1894271/54‑1 (MQ=255)
tAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCtt < 1:1157076/54‑1 (MQ=255)
tAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCtt < 1:890931/54‑1 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTAc > 1:1736841/1‑47 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTAc > 1:3134001/1‑47 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTAc > 1:884150/1‑47 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCagagag > 1:3432227/1‑71 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCagagag > 1:1648102/1‑71 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCagagag > 1:2422503/1‑71 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCagagag > 1:3022542/1‑71 (MQ=255)
ggCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGCCTTACCTGAAGTGAGGACGACGCagagag > 1:2121949/1‑71 (MQ=255)
gCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCagagag < 1:1309682/70‑1 (MQ=255)
gCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAgg < 1:461316/71‑1 (MQ=255)
ttCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTg < 1:3299718/45‑1 (MQ=255)
ttCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTg < 1:932425/45‑1 (MQ=255)
ttCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTg < 1:2720678/45‑1 (MQ=255)
ttCTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTg < 1:1343899/45‑1 (MQ=255)
cattAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGaa > 1:1558700/3‑45 (MQ=255)
cTTTAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGaa > 1:939614/1‑45 (MQ=255)
tttAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGca > 1:3696189/1‑69 (MQ=255)
tAAGGGTGGCTGAATACATTAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACag < 1:3579673/70‑1 (MQ=255)
tAAGGGTGGCTGAATACATGAGTATTCACAGTCTTa > 1:1185841/1‑36 (MQ=255)
tAAGGGTGGCTGAATACATGAGTATTCACAGTCTTa > 1:931193/1‑36 (MQ=255)
tAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACag < 1:1802365/70‑1 (MQ=255)
tAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACag < 1:1822958/70‑1 (MQ=255)
tAAGGGTGGCTGAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACag < 1:2489673/70‑1 (MQ=255)
gAATACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGca < 1:1826024/56‑1 (MQ=255)
aTACATGAGTATTCACAGTCTTACCTGAAGGGAGGACGACGCagagag < 1:678912/48‑1 (MQ=255)
tACATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACag < 1:3280956/56‑1 (MQ=255)
cATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCa < 1:905682/70‑1 (MQ=255)
cATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCa < 1:1338865/70‑1 (MQ=255)
cATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCa < 1:1565262/70‑1 (MQ=255)
cATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAg > 1:3314211/1‑71 (MQ=255)
cATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAg > 1:775201/1‑71 (MQ=255)
cATGAGTATTCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGAGCCGTTCAg > 1:3330514/1‑71 (MQ=255)
ttCACAGTCTTACCTTAAGTGAGGACGACGCAGAGAGGATg < 1:2621411/41‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGATAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaaa < 1:2568839/71‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATg < 1:1778198/41‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATg < 1:3605163/41‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaaa < 1:3531170/71‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaaa < 1:926787/71‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaaa < 1:2610087/71‑1 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaa > 1:2438879/1‑70 (MQ=255)
ttCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaa > 1:771675/1‑70 (MQ=255)
ttCACAGCCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaaa < 1:873379/71‑1 (MQ=255)
tCACAGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCaaaaa < 1:1981099/70‑1 (MQ=255)
cacaGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACaga > 1:309036/1‑45 (MQ=255)
cacaGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACaga > 1:1488167/1‑45 (MQ=255)
cacaGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACaga > 1:296724/1‑45 (MQ=255)
cacaGTCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACaga > 1:2941832/1‑45 (MQ=255)
|
AGTTAAATAGAGCATTGGCTATTCTTTAAGGGTGGCTGAATACATGAGTATTCACAGCCTTACCTGAAGTGAGGACGACGCAGAGAGGATGCACAGAGTGCTGCGCCGTTCAGGTCAAAAA > W3110S.gb/4066729‑4066849
|
| 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
