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 |
3,704,876 |
C→T |
36.0% |
M164I (ATG→ATA) |
trkD ← |
potassium transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,704,876 | 0 | C | T | 36.0%
| 52.2
/ 48.3
| 50 | M164I (ATG→ATA) | trkD | potassium transporter |
| Reads supporting (aligned to +/- strand): ref base C (19/13); new base T (7/11); total (26/24) |
| Fisher's exact test for biased strand distribution p-value = 2.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
ACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATCCA > W3110S.gb/3704815‑3704944
|
aCCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGt < 1:1309718/70‑1 (MQ=255)
aCCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGt < 1:701848/70‑1 (MQ=255)
ccccAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGc < 1:769879/71‑1 (MQ=255)
cAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCAt > 1:441054/1‑71 (MQ=255)
gTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGt > 1:2299755/1‑64 (MQ=255)
ccAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGttttt < 1:2849489/69‑1 (MQ=255)
ccAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTg < 1:31985/70‑1 (MQ=255)
aGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAAt > 1:1646489/1‑71 (MQ=255)
aaaaCCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCataaa > 1:4456162/1‑70 (MQ=255)
cAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAAtaataa < 1:497032/71‑1 (MQ=255)
aGGTCAGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATaaa < 1:4807634/71‑1 (MQ=255)
aGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATaaa < 1:2917990/71‑1 (MQ=255)
tCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTg < 1:4263775/71‑1 (MQ=255)
aGCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGtt < 1:537326/46‑1 (MQ=255)
gCATGATCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTg < 1:940755/49‑1 (MQ=255)
aTGATCGGCGCAAACAGCTTACCGACCATAGCCGTGc < 1:135946/37‑1 (MQ=255)
aTGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGaa > 1:2431531/1‑70 (MQ=255)
gATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAataata < 1:1127528/59‑1 (MQ=255)
aTCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAaataat > 1:4014752/1‑57 (MQ=255)
aTCGGCGCAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGa < 1:557662/70‑1 (MQ=255)
aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGa > 1:4897657/1‑70 (MQ=255)
aTCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGa > 1:3996980/1‑70 (MQ=255)
tCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCataaa > 1:2244433/1‑52 (MQ=255)
tCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCataaa > 1:3827857/1‑52 (MQ=255)
gcgcAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt < 1:3139143/71‑1 (MQ=255)
cgcAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTg < 1:2603875/39‑1 (MQ=255)
cgcAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt > 1:5103776/1‑70 (MQ=255)
cgcAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAt > 1:1233664/1‑69 (MQ=255)
gcAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt > 1:279473/1‑69 (MQ=255)
gcAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTga < 1:1232295/71‑1 (MQ=255)
cAAACAGCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTgag < 1:971771/71‑1 (MQ=255)
cAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt > 1:1676351/1‑68 (MQ=255)
cAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt > 1:3005648/1‑68 (MQ=255)
cAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAAtt > 1:4278368/1‑68 (MQ=255)
aCAGCTGACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTgaga > 1:655599/1‑69 (MQ=255)
cAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATaaa > 1:134964/1‑49 (MQ=255)
cAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTga > 1:4765163/1‑53 (MQ=255)
gCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGt < 1:1335636/49‑1 (MQ=255)
gCTTACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGt < 1:1889006/49‑1 (MQ=255)
cTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGaa > 1:4454569/1‑71 (MQ=255)
cTTAACGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATaaa > 1:2412989/1‑46 (MQ=255)
tACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTgag > 1:4680588/1‑49 (MQ=255)
tACCGACTATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAAc > 1:3963645/1‑70 (MQ=255)
aCCGACTATAGCCGTGCCATGTTTTTGAATCataa > 1:1325319/1‑35 (MQ=255)
aCCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACt < 1:3612124/70‑1 (MQ=255)
aCCGACCATAGCCGTGCCATGTTCTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACt < 1:4767728/70‑1 (MQ=255)
gACCATAGGCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATaa > 1:3335608/1‑53 (MQ=255)
gACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATcc < 1:1972636/71‑1 (MQ=255)
aCCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGaa > 1:4572669/1‑64 (MQ=255)
aCCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATCCa < 1:815823/71‑1 (MQ=255)
|
ACCCCAGTCCTGCCAGAATCAAAAACCAGGTCAGCATGATCGGCGCAAACAGCTTACCGACCATAGCCGTGCCATGTTTTTGAATCATAAATAATAAAGTGAGAACGATAATTGAGAGGGGAACTATCCA > W3110S.gb/3704815‑3704944
|
| 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
