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 |
|
A2 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,069,991 |
G→A |
41.3% |
Q296Q (CAG→CAA) |
cfa → |
cyclopropane fatty acyl phospholipid synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,069,991 | 0 | G | A | 41.3%
| 27.7
/ 53.3
| 46 | Q296Q (CAG→CAA) | cfa | cyclopropane fatty acyl phospholipid synthase |
| Reads supporting (aligned to +/- strand): ref base G (16/11); new base A (6/13); total (22/24) |
| Fisher's exact test for biased strand distribution p-value = 7.97e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGATA > minE/1069929‑1070058
|
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGc < 1:1673151/68‑1 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTc > 1:3640914/1‑70 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTcc < 1:3948230/71‑1 (MQ=255)
tGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTcc < 1:3622334/70‑1 (MQ=255)
gATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAg > 1:2374054/1‑71 (MQ=255)
gATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAg > 1:3695413/1‑71 (MQ=255)
tCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCg < 1:3078362/71‑1 (MQ=255)
ccTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGaa > 1:3206275/1‑71 (MQ=255)
aTTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAAcccc < 1:265505/70‑1 (MQ=255)
atatatTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGa < 1:2249932/71‑1 (MQ=255)
atatatTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGa < 1:2433358/71‑1 (MQ=255)
atatTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGAt > 1:1474823/1‑70 (MQ=255)
atatTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATg > 1:1250107/1‑71 (MQ=255)
atatTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATg > 1:2481617/1‑71 (MQ=255)
tCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGAc < 1:46872/70‑1 (MQ=255)
tCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACt > 1:927992/1‑71 (MQ=255)
aaCGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTtgt < 1:3765886/56‑1 (MQ=255)
aCGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCAt < 1:2673283/71‑1 (MQ=255)
gTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTTGCATAAc > 1:579101/1‑71 (MQ=255)
gTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAAc > 1:2848247/1‑71 (MQ=255)
gTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAAc < 1:2792848/71‑1 (MQ=255)
gTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTAGTGATGGAAGACTGGCATAAc < 1:94969/71‑1 (MQ=255)
tgcctgccCTCTGTACGCCAGATTGGTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACtt > 1:3477367/1‑71 (MQ=255)
tgcctgccCTCTGTACGCCAGATTGCTCAGTCCAg > 1:3391092/1‑35 (MQ=255)
tgcctgccCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTtgt < 1:99536/50‑1 (MQ=255)
tgcctgccCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACtt > 1:1768587/1‑71 (MQ=255)
gcctgccCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACtt < 1:2066561/70‑1 (MQ=255)
gcctgccCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACtt < 1:2006838/70‑1 (MQ=255)
gcctgccCTCTGTACGCCAAATTGCGCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACtt < 1:2086606/70‑1 (MQ=255)
ctgccCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCgg < 1:2200208/71‑1 (MQ=255)
ctgccCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCgg < 1:732075/71‑1 (MQ=255)
ctgccCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCgg < 1:4228128/71‑1 (MQ=255)
ctgccCTCTGTACGCCAGATTGCTCAGTCAAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCgg < 1:930987/71‑1 (MQ=255)
cccTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTg < 1:2237695/70‑1 (MQ=255)
cccTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTg < 1:3652237/70‑1 (MQ=255)
ctGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGAt > 1:1721024/1‑71 (MQ=255)
ctGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGAt > 1:494177/1‑71 (MQ=255)
ctGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGAt > 1:719611/1‑71 (MQ=255)
ctGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGa > 1:476492/1‑70 (MQ=255)
tGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATTGAAGACTGGCATAACTTCGGTGCTGa < 1:3822621/69‑1 (MQ=255)
cGCCAAATTACTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGa < 1:1598425/71‑1 (MQ=255)
ccAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGAta > 1:3154516/1‑71 (MQ=255)
ccAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGAta > 1:1292952/1‑71 (MQ=255)
cAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACt > 1:2489130/1‑43 (MQ=255)
cAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACt > 1:1623052/1‑43 (MQ=255)
cAGATTGCCCAGTCCAGCGAACCCCACTTTGTGATGGAAGACt > 1:3550658/1‑43 (MQ=255)
|
AATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGATA > minE/1069929‑1070058
|
| 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
