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 |
3,294,438 |
T→C |
38.6% |
L395S (TTG→TCG) |
yraM → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,294,438 | 0 | T | C | 38.6%
| 26.9
/ 49.0
| 44 | L395S (TTG→TCG) | yraM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (15/12); new base C (7/10); total (22/22) |
| Fisher's exact test for biased strand distribution p-value = 5.37e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.92e-01 |
TTAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAAT > W3110S.gb/3294368‑3294499
|
ttAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGtt > 1:3258321/1‑71 (MQ=255)
cAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTg > 1:2124068/1‑69 (MQ=255)
aGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTg > 1:2223577/1‑68 (MQ=255)
ggTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGaa > 1:864634/1‑69 (MQ=255)
tCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGc > 1:900557/1‑70 (MQ=255)
agcagGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTg < 1:832109/62‑1 (MQ=255)
gcagGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCaa < 1:3824781/69‑1 (MQ=255)
aTGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGaa > 1:2659820/1‑58 (MQ=255)
aTGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGaa > 1:3169260/1‑58 (MQ=255)
gcgcGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCt > 1:1951248/1‑70 (MQ=255)
gAGTATTGTGGTCGGTCCGTTGCTGAAGAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACg > 1:4304512/1‑71 (MQ=255)
gAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGc < 1:2973677/55‑1 (MQ=255)
aGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGc < 1:1254888/54‑1 (MQ=255)
gTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTa > 1:4524909/1‑71 (MQ=255)
tATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCaa > 1:1855133/1‑54 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCaa > 1:3296714/1‑52 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTg > 1:2660539/1‑71 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTg > 1:4185070/1‑71 (MQ=255)
ttGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTg > 1:248797/1‑71 (MQ=255)
tgtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGc > 1:3015518/1‑49 (MQ=255)
tgtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGt < 1:1950125/66‑1 (MQ=255)
tgtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGt < 1:1162707/66‑1 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACg < 1:2164713/64‑1 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACg < 1:1985731/64‑1 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACg < 1:5034734/64‑1 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTgg < 1:137500/70‑1 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTgg < 1:428341/70‑1 (MQ=255)
gtgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTgg < 1:4180912/70‑1 (MQ=255)
tgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTc > 1:3854255/1‑54 (MQ=255)
tgGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCa > 1:1334837/1‑71 (MQ=255)
gtcggtcCGTTGCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACt > 1:1104613/1‑51 (MQ=255)
gTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGt < 1:315751/54‑1 (MQ=255)
gTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGt < 1:171338/54‑1 (MQ=255)
gTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGt < 1:1505848/54‑1 (MQ=255)
gTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGt < 1:833824/54‑1 (MQ=255)
gCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCg > 1:2531871/1‑70 (MQ=255)
gCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCg < 1:4660769/70‑1 (MQ=255)
gCTGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAAcc > 1:3639278/1‑65 (MQ=255)
tGAAAAATAACGTTGAAGAGTCGCTGAAGAGCAACACTCCGCTg < 1:4275863/44‑1 (MQ=255)
aaaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgag < 1:4483456/69‑1 (MQ=255)
aaaaaTAACGTTGAAGAGTCTCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgaga < 1:973355/70‑1 (MQ=255)
aaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGgaga > 1:4616745/1‑69 (MQ=255)
aaaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGaa > 1:926759/1‑70 (MQ=255)
aaaTAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAata < 1:3475215/71‑1 (MQ=255)
ttGAAGAGTCGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAAt < 1:1106274/71‑1 (MQ=255)
|
TTAAGCCAGGTTCAGCAGGATGGCGCGAGTATTGTGGTCGGTCCGTTGCTGAAAAATAACGTTGAAGAGTTGCTGAAGAGCAACACTCCGCTGAACGTACTGGCACTGAACCAGCCGGAGAATATCGAAAAT > W3110S.gb/3294368‑3294499
|
| 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
