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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,383,928 |
C→T |
18.4% |
A66T (GCG→ACG) |
mdh ← |
malate dehydrogenase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,383,928 | 0 | C | T | 18.4%
| 86.3
/ 12.4
| 38 | A66T (GCG→ACG) | mdh | malate dehydrogenase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (17/14); new base T (3/4); total (20/18) |
| Fisher's exact test for biased strand distribution p-value = 6.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
CGATCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGACAGC > W3110S.gb/3383864‑3383997
|
cGATCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGt < 1:2571360/71‑1 (MQ=255)
ccATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCa > 1:3595136/1‑71 (MQ=255)
aTACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATc < 1:2873840/71‑1 (MQ=255)
ttACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCg > 1:3659987/1‑52 (MQ=255)
tACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGa > 1:657559/1‑70 (MQ=255)
aCGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGaa > 1:1864695/1‑70 (MQ=255)
gcgcTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGaaaaa < 1:2386136/71‑1 (MQ=255)
cGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCttt > 1:3155809/1‑70 (MQ=255)
tGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAttt > 1:3223755/1‑71 (MQ=255)
cAGAGATAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt > 1:571146/1‑70 (MQ=255)
agagATAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:2184136/69‑1 (MQ=255)
gagaTAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTcac < 1:2625487/71‑1 (MQ=255)
aTAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcag > 1:2458057/1‑70 (MQ=255)
tAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:3618319/64‑1 (MQ=255)
aaGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagcag > 1:3038636/1‑71 (MQ=255)
cGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAgg > 1:3164732/1‑70 (MQ=255)
gACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGa < 1:4023793/71‑1 (MQ=255)
aCATCTGCGCCTTCCAGAGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGa < 1:2195539/70‑1 (MQ=255)
cATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGata < 1:2741044/71‑1 (MQ=255)
cATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGata < 1:4540734/71‑1 (MQ=255)
tCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtt < 1:4294002/51‑1 (MQ=255)
tCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATg > 1:2853548/1‑71 (MQ=255)
cTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATgg > 1:4107376/1‑71 (MQ=255)
cTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGata > 1:632401/1‑68 (MQ=255)
tGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCttt > 1:3057072/1‑45 (MQ=255)
tGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTca > 1:2537265/1‑53 (MQ=255)
tGCGCCTTCCAGCGCCGGAGTCGCATCTTCACAAGAAAAAc > 1:335551/1‑41 (MQ=255)
cgcCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCt < 1:1742397/70‑1 (MQ=255)
gcCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCt > 1:3249189/1‑69 (MQ=255)
cTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTc > 1:3816628/1‑47 (MQ=255)
ttCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:3381170/45‑1 (MQ=255)
ttCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTc > 1:1452865/1‑46 (MQ=255)
tCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCt < 1:2968524/36‑1 (MQ=255)
ccAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATc > 1:4583841/1‑70 (MQ=255)
ccAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATc < 1:2905815/70‑1 (MQ=255)
ccAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATc < 1:2156887/70‑1 (MQ=255)
ccAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATc < 1:1785616/70‑1 (MQ=255)
cAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCg < 1:1511369/70‑1 (MQ=255)
gcgcCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:3864037/40‑1 (MQ=255)
gcgcCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGACa < 1:3213627/71‑1 (MQ=255)
gcgcCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTAACAGCAGTAggg < 1:763540/53‑1 (MQ=255)
cgcCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtt > 1:1566643/1‑37 (MQ=255)
gcCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGACAGc < 1:2795204/71‑1 (MQ=255)
ccGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:3707469/37‑1 (MQ=255)
|
CGATCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGACAGC > W3110S.gb/3383864‑3383997
|
| 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
