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 |
|
A89 F1 I1 R1
|
15 |
55.0 |
3646496 |
95.5% |
3482403 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,250,032 |
G→A |
S406F (TCT→TTT) |
infB ← |
translation initiation factor IF‑2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,250,032 | 0 | G | A | 98.0%
| 188.6
/ NA
| 50 | S406F (TCT→TTT) | infB | translation initiation factor IF‑2 |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (24/25); minor base C (1/0); total (25/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAATGTGCTGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAGAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCGCAGCACCCGTGT > REL606/3249964‑3250104
|
cAATGTGCTGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGtttt < 1:1256695/76‑1 (MQ=255)
aaTGTGCTGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTa < 2:1694731/76‑1 (MQ=255)
tgCTGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGt > 1:1258720/1‑76 (MQ=255)
gCTGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTg > 1:239675/1‑76 (MQ=255)
tGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGt > 2:69987/1‑76 (MQ=255)
ggTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCa < 1:719500/76‑1 (MQ=255)
ggTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCa < 1:635594/76‑1 (MQ=255)
gTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCaa < 2:157657/76‑1 (MQ=255)
tAATGCCGCCCGCTTCGCCGGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTCCCGTGGTCAAc < 2:1404235/76‑1 (MQ=255)
aTGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGt < 2:1025056/76‑1 (MQ=255)
tGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTg < 2:776982/76‑1 (MQ=255)
tGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTg < 2:443224/76‑1 (MQ=255)
gcccgcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGAccc < 1:860335/76‑1 (MQ=255)
gcccgcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGAccc > 2:353025/1‑76 (MQ=255)
gcccgcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGAccc > 2:101479/1‑76 (MQ=255)
ccgcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGACAGGTTTTACCGTGGTCAACGTGCCCCat > 1:1794939/1‑76 (MQ=255)
ccacTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCat > 1:1794924/4‑76 (MQ=255)
cgcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCatg < 1:527789/76‑1 (MQ=255)
gcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCatga > 2:528373/1‑76 (MQ=255)
gcTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCatga > 1:515642/1‑76 (MQ=255)
cTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCatgat < 2:781208/76‑1 (MQ=255)
ttCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCatgatg > 1:216572/1‑76 (MQ=255)
cGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGt > 1:544359/1‑76 (MQ=255)
gCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTc < 1:271613/76‑1 (MQ=255)
gCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCAAGATGGTc < 1:651751/76‑1 (MQ=255)
ccAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTca > 2:411997/1‑76 (MQ=255)
cAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTcac < 1:4158/76‑1 (MQ=255)
cAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTcac > 2:1615538/1‑76 (MQ=255)
agagGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTcaca < 1:778654/76‑1 (MQ=255)
agagGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTcaca > 1:216390/1‑76 (MQ=255)
agagGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTcaca > 2:539453/1‑76 (MQ=255)
gagGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACaa < 1:357341/76‑1 (MQ=255)
agGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAAc > 2:718998/1‑76 (MQ=255)
ggCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAAcc < 1:483570/76‑1 (MQ=255)
ggCCACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAAcc < 1:1338405/76‑1 (MQ=255)
cACTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGgc > 2:894195/1‑76 (MQ=255)
cTTTCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGgcgc > 1:1792193/1‑76 (MQ=255)
tttCGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGgcgcg < 2:1294179/76‑1 (MQ=255)
cGTTGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGgcgcgcgc > 2:175783/1‑76 (MQ=255)
ttGAACGAATGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCgg > 1:484422/1‑76 (MQ=255)
aaCGAATGGAGTCCAGCAGAAAGGTTTTGCCGTGGTCAACGTGACCCAGGAGGGTCACAACCGGCGCGCGCGGTTc < 2:73709/76‑1 (MQ=255)
aaTGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGcc > 2:147259/1‑76 (MQ=255)
aaTGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGcc > 1:800265/1‑76 (MQ=255)
aTGTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCg < 1:292975/76‑1 (MQ=255)
gTAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCgca > 2:1225878/1‑76 (MQ=255)
tAGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCgcag < 1:1662891/76‑1 (MQ=255)
aGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCgcagc < 1:1540620/76‑1 (MQ=255)
aGTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCgcagc > 2:700048/1‑76 (MQ=255)
gTCCTGCAGAATGGTGTTACCGTGGTCAACGTGACCGATGATGGTCACAACCGGCGCGCGCGGTTCAGCCgcagca < 2:718347/76‑1 (MQ=38)
gTCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCgcagca < 2:1633821/76‑1 (MQ=255)
tCCAGCAGAAAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCGCAGCAc > 2:1474148/1‑76 (MQ=255)
agaaagGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCACCCCCACCACCCgggc > 1:496158/1‑73 (MQ=255)
|
CAATGTGCTGGGTAATGCCGCCCGCTTCGCCAGAGGCCACTTTCGTTGAACGAATGTAGTCCAGCAGAGAGGTTTTACCGTGGTCAACGTGACCCATGATGGTCACAACCGGCGCGCGCGGTTCAGCCGCAGCACCCGTGT > REL606/3249964‑3250104
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
