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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,313,823 |
T→C |
E349G (GAA→GGA) |
yojL ← |
predicted thiamine biosynthesis lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,313,823 | 0 | T | C | 95.5%
| 232.2
/ 0.7
| 67 | E349G (GAA→GGA) | yojL | predicted thiamine biosynthesis lipoprotein |
| Reads supporting (aligned to +/- strand): ref base T (0/3); new base C (38/26); total (38/29) |
| Fisher's exact test for biased strand distribution p-value = 7.63e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.93e-01 |
ATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATC > W3110S.gb/2313760‑2313875
|
aTAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:4017693/1‑70 (MQ=255)
aTAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:1856215/1‑70 (MQ=255)
tAGGCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:3749376/1‑69 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:349748/1‑69 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:3899405/1‑69 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:1879617/1‑69 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:570683/1‑69 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGa > 1:28531/1‑69 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGAc > 1:1743476/1‑70 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGAc > 1:321256/1‑70 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGAc > 1:1754224/1‑70 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGAc > 1:712750/1‑70 (MQ=255)
tAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGAc > 1:1384873/1‑70 (MQ=255)
tttAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAg < 1:2838663/68‑1 (MQ=255)
tttAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAg < 1:225277/68‑1 (MQ=255)
tttAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAg < 1:1456856/68‑1 (MQ=255)
tAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAg < 1:438777/70‑1 (MQ=255)
tAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAg < 1:533845/70‑1 (MQ=255)
tAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAg < 1:276161/70‑1 (MQ=255)
tGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCtttt > 1:2467753/1‑70 (MQ=255)
tGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCtttt > 1:2132426/1‑70 (MQ=255)
tGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCtttt > 1:2020674/1‑70 (MQ=255)
tGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCtttt > 1:359598/1‑70 (MQ=255)
tGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCttt > 1:1317065/1‑69 (MQ=255)
gTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt > 1:2648996/1‑71 (MQ=255)
gTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt > 1:3744469/1‑71 (MQ=255)
gTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt > 1:255575/1‑71 (MQ=255)
caccaccacGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACt > 1:1778574/1‑67 (MQ=255)
cACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACt > 1:2712625/1‑67 (MQ=255)
cACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACt > 1:3275936/1‑67 (MQ=255)
cACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACt > 1:3426351/1‑67 (MQ=255)
cACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACt > 1:2007420/1‑67 (MQ=255)
cACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtgg > 1:1297261/1‑71 (MQ=255)
aTCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGa < 1:3899835/70‑1 (MQ=255)
aTCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGa < 1:506332/70‑1 (MQ=255)
aTCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGa < 1:1670790/70‑1 (MQ=255)
aTCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGa < 1:1632763/70‑1 (MQ=255)
cACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACAt > 1:177243/1‑71 (MQ=255)
cACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACAt > 1:591726/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACa > 1:2541622/1‑69 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACa > 1:2110415/1‑69 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:1327770/1‑71 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:672841/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:845036/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:1200915/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:3264217/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:1008183/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:2385583/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:1825348/59‑1 (MQ=255)
cAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:2180340/59‑1 (MQ=255)
aaaaaCCAACAATCTTGCGCTTTTTTTTTTTCCGCTGACAAGGAAGGTTTTAAACtgt < 1:659988/58‑1 (MQ=255)
aaaaCCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGt < 1:2768638/71‑1 (MQ=255)
aCCAACAATCTTGCGCTTTAATTTTTTCCGCTGCCAAGGAAGCTTTTAAACTGTGGTGACATCCAGGttt > 1:2144844/1‑70 (MQ=255)
aCCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGttt > 1:3598901/1‑70 (MQ=255)
aCCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGttt > 1:1675980/1‑70 (MQ=255)
aCCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGttt > 1:2210206/1‑70 (MQ=255)
ccAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTa < 1:2983026/71‑1 (MQ=255)
ccAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTa < 1:2789387/71‑1 (MQ=255)
ccAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTa < 1:4090692/71‑1 (MQ=255)
caaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtgt < 1:3099054/49‑1 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCt < 1:2384441/71‑1 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCt < 1:2769612/71‑1 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCt < 1:3634693/71‑1 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCt < 1:914645/71‑1 (MQ=255)
cTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATc > 1:1703970/1‑71 (MQ=255)
cTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATc > 1:1553019/1‑71 (MQ=255)
tttAATTTTTTCGGCTGACAAGGAAGCTTTTAAACtgt < 1:3930158/38‑1 (MQ=38)
|
ATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATC > W3110S.gb/2313760‑2313875
|
| 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
