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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,083,312 |
G→A |
12.3% |
G325E (GGG→GAG) |
rtcB → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,083,312 | 0 | G | A | 12.3%
| 164.2
/ 12.0
| 57 | G325E (GGG→GAG) | rtcB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (17/33); new base A (5/2); total (22/35) |
| Fisher's exact test for biased strand distribution p-value = 9.52e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.24e-01 |
TCTGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAATGAGCCGAACTAAAGCG > W3110S.gb/4083245‑4083382
|
tCTGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGc < 1:3358569/70‑1 (MQ=255)
cgcgTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTg < 1:2156037/68‑1 (MQ=255)
gTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAAt < 1:754418/71‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATg < 1:3833147/71‑1 (MQ=255)
tGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATg < 1:218885/71‑1 (MQ=255)
cTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGaa < 1:4057105/71‑1 (MQ=255)
tCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGt < 1:3608614/71‑1 (MQ=255)
aaTATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTc < 1:4218013/70‑1 (MQ=255)
aaTATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCg > 1:1331771/1‑71 (MQ=255)
tatGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGtt < 1:4492400/71‑1 (MQ=255)
tatGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGt > 1:248188/1‑70 (MQ=255)
atGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGtt < 1:4497670/70‑1 (MQ=255)
tGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTggg > 1:3978433/1‑54 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTg > 1:4176012/1‑70 (MQ=255)
gAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGt > 1:417638/1‑71 (MQ=255)
aaTTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGtt < 1:1846679/71‑1 (MQ=255)
aaTTATTCCCGGTTCGATGCGAGCAAAAAGCTTTATCGTCCGTGGGCTggg > 1:2194682/1‑51 (MQ=255)
ttattCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCg < 1:2478668/62‑1 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTgg > 1:1727973/1‑41 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTgg > 1:699777/1‑41 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGTCTGGGAAATGAAGAGTCGTTCTGTTCGt < 1:652732/70‑1 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGt < 1:3384823/70‑1 (MQ=255)
attCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTg > 1:1394229/1‑71 (MQ=255)
ttCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGaa < 1:3496611/53‑1 (MQ=255)
ttCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAag > 1:1529088/1‑54 (MQ=255)
attccGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTg > 1:2332864/4‑70 (MQ=255)
cccGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAg > 1:1937086/1‑71 (MQ=255)
ccGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGc < 1:3363190/68‑1 (MQ=255)
ggTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCa < 1:326788/71‑1 (MQ=255)
ggTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCa < 1:2138170/71‑1 (MQ=255)
ggTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCa > 1:3855970/1‑71 (MQ=255)
gTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCAc < 1:1106931/71‑1 (MQ=255)
gTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCAc < 1:2020348/71‑1 (MQ=255)
tCGATGGGAGCAAAAAGCTTTATCGTCCGTGAGCTTGGAAATGa > 1:2366826/1‑44 (MQ=38)
cGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGt > 1:2610400/1‑60 (MQ=255)
gATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTc < 1:1627950/57‑1 (MQ=255)
gATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGc < 1:3030926/64‑1 (MQ=255)
aTGGGAGCAAAAAGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGc < 1:3746883/71‑1 (MQ=255)
tGGGAGCAAAAAGATTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGcc > 1:1731608/1‑71 (MQ=255)
ggAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgg < 1:4311830/71‑1 (MQ=255)
ggAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgg > 1:173958/1‑71 (MQ=255)
ggAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgg > 1:637433/1‑71 (MQ=255)
aGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgggc > 1:1038872/1‑71 (MQ=255)
gCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgggcg > 1:279972/1‑71 (MQ=255)
aaaaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgggcgg < 1:3438424/70‑1 (MQ=255)
aaaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgggcggg > 1:3798578/1‑70 (MQ=255)
aaaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGt < 1:2683885/71‑1 (MQ=255)
aaaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGt < 1:1752232/71‑1 (MQ=255)
aaaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTGCTGTTCGTGCAGCCACGGTGCCGGGCGGGt < 1:2689315/71‑1 (MQ=255)
aaaaGCTTTATCGTCCGTGAGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgg < 1:3063136/65‑1 (MQ=255)
aaaaCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGt > 1:4185992/1‑70 (MQ=255)
aaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTg < 1:4548841/49‑1 (MQ=255)
aaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTa < 1:1334683/71‑1 (MQ=255)
aaaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCAGGCGGGTa < 1:3806061/71‑1 (MQ=255)
aaGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcggg > 1:2185653/1‑64 (MQ=255)
aGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTa > 1:203339/1‑69 (MQ=255)
aGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAAt < 1:3091469/71‑1 (MQ=255)
tATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGt < 1:3519576/37‑1 (MQ=255)
tCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCcgggcggg < 1:1770192/60‑1 (MQ=255)
ggCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAATGAGCCGAACTAAAGCg < 1:4320116/71‑1 (MQ=255)
|
TCTGCGCGTGCTGGTCAATATGGAATTATTCCCGGTTCGATGGGAGCAAAAAGCTTTATCGTCCGTGGGCTGGGAAATGAAGAGTCGTTCTGTTCGTGCAGCCACGGTGCCGGGCGGGTAATGAGCCGAACTAAAGCG > W3110S.gb/4083245‑4083382
|
| 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
