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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,069,991 |
G→A |
10.2% |
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 | 10.2%
| 115.5
/ 4.3
| 39 | Q296Q (CAG→CAA) | cfa | cyclopropane fatty acyl phospholipid synthase |
| Reads supporting (aligned to +/- strand): ref base G (13/22); new base A (2/2); total (15/24) |
| Fisher's exact test for biased strand distribution p-value = 6.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.77e-01 |
AATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGATAC > minE/1069929‑1070059
|
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTg < 1:524713/67‑1 (MQ=255)
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTg < 1:1406463/67‑1 (MQ=255)
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTg < 1:2112223/67‑1 (MQ=255)
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCt < 1:3137192/69‑1 (MQ=255)
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCt < 1:2382301/69‑1 (MQ=255)
aaTGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCt > 1:3598672/1‑69 (MQ=255)
tGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGt > 1:3589274/1‑71 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACTCCAGATTGCTCAGTc > 1:1144035/1‑70 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTcc < 1:2674974/71‑1 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTcc < 1:3478050/71‑1 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTcc < 1:3689329/71‑1 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTcc < 1:1200514/71‑1 (MQ=255)
ttGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTc > 1:140588/1‑70 (MQ=255)
tGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTcc < 1:1472395/70‑1 (MQ=255)
tGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTc > 1:3501178/1‑69 (MQ=255)
gATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAg > 1:417075/1‑71 (MQ=255)
gATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCa < 1:2691102/70‑1 (MQ=255)
tGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCa > 1:3625852/1‑64 (MQ=255)
tGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAAcc > 1:2888989/1‑71 (MQ=255)
gATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAAccc > 1:256486/1‑70 (MQ=255)
gATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAAccc > 1:2618871/1‑70 (MQ=255)
aataTATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAAGCCCACTTtgt < 1:857549/70‑1 (MQ=255)
aataTATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTtgt < 1:1618320/70‑1 (MQ=255)
aataTATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTtgt < 1:638818/70‑1 (MQ=255)
aataTATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTtgt < 1:3299365/70‑1 (MQ=255)
tatTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGc < 1:523152/42‑1 (MQ=255)
tttttCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGaa < 1:3198452/53‑1 (MQ=255)
tttttCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGaa > 1:157595/1‑53 (MQ=255)
tttttCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGaa < 1:2241332/71‑1 (MQ=255)
tttttCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGaa < 1:2203055/71‑1 (MQ=255)
tttttCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGaa < 1:765835/71‑1 (MQ=255)
tttttCCGAACGGTTGCCTGCCCTCTGTACGCCAAATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGaa < 1:1432966/71‑1 (MQ=255)
ccTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCt < 1:2632528/71‑1 (MQ=255)
tACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCa > 1:3115183/1‑52 (MQ=255)
tACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCa > 1:509470/1‑52 (MQ=255)
tACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTAc < 1:3191098/71‑1 (MQ=255)
tACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTAc > 1:3714958/1‑71 (MQ=255)
tACGCCAGATAGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCa > 1:2505174/1‑52 (MQ=255)
cAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGAtac < 1:518711/71‑1 (MQ=255)
gATTTCTCAGTCCAGCGAACCCCACTTTGTGATgg < 1:2266942/35‑1 (MQ=255)
gATTGCTCAGTCCAGCGAACCCCACTTTGTGATgg < 1:1227568/35‑1 (MQ=255)
gATTGCTCAGTCCAGCGAACCCCACTTTGTGATgg < 1:1852031/35‑1 (MQ=255)
gATTGCTCAGTCCAGCGAACCCCACTTTGTGATgg < 1:974162/35‑1 (MQ=255)
|
AATGTTGATCCCTGGATTAATAAATATATTTTTCCGAACGGTTGCCTGCCCTCTGTACGCCAGATTGCTCAGTCCAGCGAACCCCACTTTGTGATGGAAGACTGGCATAACTTCGGTGCTGATTACGATAC > minE/1069929‑1070059
|
| 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
