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 |
|
A16 F999 I0 R1
|
97 |
117.0 |
8624996 |
98.0% |
8452496 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,606,331 |
A→G |
noncoding (71/87 nt) |
leuQ ← |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,606,331 | 0 | A | G | 78.5%
| 126.4
/ 35.5
| 67 | noncoding (71/87 nt) | leuQ | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base A (6/8); new base G (19/32); total (26/41) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
GCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAA > NC_000913/4606285‑4606361
|
gCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCtt < 1:84463/50‑1 (MQ=255)
gCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACtt < 1:1602411/50‑1 (MQ=255)
cccAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTg < 1:5182362/50‑1 (MQ=255)
cccAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTg < 1:1546389/50‑1 (MQ=255)
cccAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTg < 1:5903644/50‑1 (MQ=255)
ccAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTg > 1:7895814/1‑49 (MQ=255)
cAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGaa < 1:6108045/50‑1 (MQ=255)
aGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAAc > 1:4234361/1‑50 (MQ=255)
gTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAAcc > 1:6807233/1‑50 (MQ=255)
gTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAAcc < 1:8226641/50‑1 (MQ=255)
tGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAAccc < 1:1229155/50‑1 (MQ=255)
cGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAAcccc < 1:2056524/49‑1 (MQ=255)
cGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAAcccc < 1:705605/49‑1 (MQ=255)
cGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGG‑CTTGAAccccc < 1:8607483/49‑1 (MQ=25)
gAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGGGCTTGAAccccc < 1:2426729/50‑1 (MQ=25)
gAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCa < 1:8102413/50‑1 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGGACCCCCAc < 1:7756923/50‑1 (MQ=25)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCAc < 1:4547081/50‑1 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCAc < 1:7253532/50‑1 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCAc < 1:2604543/50‑1 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCAc < 1:190857/50‑1 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCAc < 1:1655304/50‑1 (MQ=255)
aGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCAc < 1:1276424/50‑1 (MQ=255)
gCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGGGCTTGAACCCCCAc < 1:1749144/50‑1 (MQ=25)
gCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACg > 1:684465/1‑50 (MQ=255)
gCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACg > 1:5924931/1‑50 (MQ=255)
gCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACg > 1:1506881/1‑50 (MQ=255)
cAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGt > 1:7321508/1‑50 (MQ=255)
cAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGt < 1:3904005/50‑1 (MQ=255)
cAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGt < 1:5467464/50‑1 (MQ=255)
aaTATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTc < 1:6481906/50‑1 (MQ=255)
aaTATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTc > 1:998057/1‑50 (MQ=255)
aaTATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTc < 1:6628106/50‑1 (MQ=255)
atatCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTcc > 1:2040311/1‑50 (MQ=255)
atatCAACATGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTcc < 1:2924895/50‑1 (MQ=255)
tatCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCg > 1:975314/1‑50 (MQ=255)
tatCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCg < 1:6606403/50‑1 (MQ=255)
tCAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGt > 1:4201247/1‑49 (MQ=255)
tCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTa < 1:6504065/50‑1 (MQ=255)
cAACGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGt > 1:7763023/1‑48 (MQ=255)
aaCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTaa < 1:1968541/49‑1 (MQ=255)
aaCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg < 1:1509428/50‑1 (MQ=255)
aaCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg < 1:3252618/50‑1 (MQ=255)
aaCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg > 1:3361223/1‑50 (MQ=255)
aaCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg < 1:1884241/50‑1 (MQ=255)
aaCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg < 1:1553460/50‑1 (MQ=255)
aaCGTGGTTTTTGGAGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg > 1:6821053/1‑50 (MQ=17)
aCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAgg < 1:3547426/50‑1 (MQ=255)
aCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg > 1:574026/1‑49 (MQ=255)
aCGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAg > 1:7279418/1‑49 (MQ=255)
cGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGa > 1:842729/1‑50 (MQ=255)
cGTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGa > 1:7024954/1‑50 (MQ=255)
gTGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGac < 1:6330020/50‑1 (MQ=255)
atGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGac < 1:228480/49‑1 (MQ=255)
tGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGaca < 1:815373/50‑1 (MQ=255)
tGGTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGaca > 1:1514898/1‑50 (MQ=255)
tGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGaca > 1:3701543/1‑50 (MQ=255)
gTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGacac > 1:5939416/1‑49 (MQ=255)
gTTTTTGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGACACt < 1:872433/50‑1 (MQ=255)
tttttGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGACACTa < 1:380777/50‑1 (MQ=255)
tttttGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACt > 1:8286984/1‑49 (MQ=38)
tttttGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACt > 1:4539541/1‑49 (MQ=38)
tttttGGTGCGA‑GGGGGGGG‑CTTGAACCCCCACGTCCGTAAGGACACTaa > 1:3353871/1‑50 (MQ=11)
ttttGGTGCGAGGGGGGGGGGCTTGAACCCCCACGTCCGTAAGGACACt > 1:5337786/1‑49 (MQ=11)
ttttGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGACACTaa > 1:1058691/1‑50 (MQ=255)
tttGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGACACTaa < 1:7968542/49‑1 (MQ=12)
tttGGTGCGA‑GGGGGGGGGCTTGAACCCCCACGTCCGTAAGGACACTaa < 1:4473974/49‑1 (MQ=12)
|
GCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGA‑GGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAA > NC_000913/4606285‑4606361
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
