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 |
|
A52 F1 I1 R1
|
19 |
66.0 |
4263516 |
97.2% |
4144137 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,570,803 |
Δ1 bp |
coding (4/435 nt) |
uspA → |
universal stress global response regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,570,802 | 0 | G | . | 98.4%
| 314.0
/ ‑0.9
| 64 | coding (3/435 nt) | uspA | universal stress global response regulator |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base . (30/33); total (30/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.07e-01 |
GACGCGGGTGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTATGGCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTAT > REL606/3570727‑3570876
|
gACGCGGGTGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTATg < 2:1090159/76‑1 (MQ=255)
gACGCGGGTGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTATg > 1:1700476/1‑76 (MQ=255)
ggTGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTtata < 2:2103268/76‑1 (MQ=255)
ggTGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTtata < 1:37610/76‑1 (MQ=255)
tGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATaaa < 1:1473831/76‑1 (MQ=255)
gACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAac < 2:465779/76‑1 (MQ=255)
aCGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAaca > 1:486949/1‑76 (MQ=255)
cGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTATGGCTTATAAaca < 1:1810562/76‑1 (MQ=255)
cGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAacac > 2:54446/1‑76 (MQ=255)
gTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAAcaca > 1:1489847/1‑76 (MQ=255)
gTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAAcaca < 1:2094654/76‑1 (MQ=255)
tAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACAt < 2:1156414/76‑1 (MQ=255)
aaCGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACAtt < 2:59662/76‑1 (MQ=255)
aaCGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACAtt > 2:1886364/1‑76 (MQ=255)
cGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATtct < 2:377663/76‑1 (MQ=255)
cGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATtct < 2:278037/76‑1 (MQ=255)
aaaCGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGt > 1:1016913/1‑76 (MQ=255)
aaCGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTc < 2:588379/76‑1 (MQ=255)
gCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAt < 1:1980108/76‑1 (MQ=255)
tAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtct > 1:1417090/1‑76 (MQ=255)
tAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtct > 1:1350772/1‑76 (MQ=255)
aGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctc > 1:121590/1‑76 (MQ=255)
aGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctc < 1:61442/76‑1 (MQ=255)
aGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctc > 1:1773911/1‑76 (MQ=255)
aGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctc > 1:1364997/1‑76 (MQ=255)
gCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctct < 1:604682/76‑1 (MQ=255)
gCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctct < 2:195386/76‑1 (MQ=255)
cTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctctc > 1:687447/1‑76 (MQ=255)
cTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGAtctctc > 2:1719100/1‑76 (MQ=255)
ggCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTccc < 2:549796/76‑1 (MQ=255)
gCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTcccc < 2:1530059/76‑1 (MQ=255)
gCCAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTcccc > 1:1881926/1‑76 (MQ=255)
ccAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCg < 1:76317/76‑1 (MQ=255)
ccAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCg < 1:927025/76‑1 (MQ=255)
ccAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCg < 2:2050173/76‑1 (MQ=255)
cAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGTGGTCGCTCTCTCCCCgg > 2:1425292/1‑76 (MQ=255)
cAGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCgg > 2:1208063/1‑76 (MQ=255)
aGTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGa < 2:1700476/76‑1 (MQ=255)
gTCATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGaa < 1:911642/76‑1 (MQ=255)
cATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAg < 2:1719499/76‑1 (MQ=255)
cATCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAg < 2:548977/76‑1 (MQ=255)
aTCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGc > 2:810187/1‑76 (MQ=255)
aTCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGATCGATCTCTCCCCGGAAAGc < 1:627263/76‑1 (MQ=255)
tCGACAACTTTATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCa < 1:1675563/76‑1 (MQ=255)
tttATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTg > 1:635490/1‑76 (MQ=255)
ttATGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTgg < 2:993290/76‑1 (MQ=255)
aTGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTa > 1:745122/1‑76 (MQ=255)
aTGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTa > 1:476235/1‑76 (MQ=255)
tGGAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTag > 2:1143586/1‑76 (MQ=255)
ggAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCGCCGGAAAGCAAAGTTCTGGTaga > 2:1873768/1‑76 (MQ=255)
ggAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTaga > 1:2069477/1‑76 (MQ=255)
ggAAGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTaga < 2:189329/76‑1 (MQ=255)
aaGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAgaga < 1:1282562/76‑1 (MQ=255)
aGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGaa < 1:530302/76‑1 (MQ=255)
aGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGaa > 1:380534/1‑76 (MQ=255)
aGGAGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGaa > 2:267730/1‑76 (MQ=255)
aGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGc < 1:881903/76‑1 (MQ=255)
aGTAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGc < 1:1246933/76‑1 (MQ=255)
tAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAg < 2:629215/76‑1 (MQ=255)
tAACACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAg > 2:1654510/1‑76 (MQ=255)
aaCACTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGt > 1:1823129/1‑76 (MQ=255)
acacTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGtc > 2:1691574/1‑76 (MQ=255)
cacTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGtct < 2:1440876/76‑1 (MQ=255)
cacTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGtct > 2:2050690/1‑76 (MQ=255)
cacTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGtct > 2:801032/1‑76 (MQ=255)
acTAT‑GCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGtctc > 2:382375/1‑76 (MQ=255)
tGGCTTATAAACACACTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTAt < 2:1469155/76‑1 (MQ=255)
|
GACGCGGGTGACGTAACGGCACAAGAAACGCTAGCTGGCCAGTCATCGACAACTTTATGGAAGGAGTAACACTATGGCTTATAAACACATTCTCATCGCGGTCGATCTCTCCCCGGAAAGCAAAGTTCTGGTAGAGAAAGCAGTCTCTAT > REL606/3570727‑3570876
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
