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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
337,157 |
C→A |
16.6% |
intergenic (+129/+187) |
ybaQ → / ← copA |
predicted DNA‑binding transcriptional regulator/copper transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 337,157 | 0 | C | A | 16.6%
| 181.0
/ 17.0
| 66 | intergenic (+129/+187) | ybaQ/copA | predicted DNA‑binding transcriptional regulator/copper transporter |
| Reads supporting (aligned to +/- strand): ref base C (31/24); new base A (4/7); total (35/31) |
| Fisher's exact test for biased strand distribution p-value = 3.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.43e-01 |
CGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTA > minE/337088‑337225
|
cgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGcc > 1:2095066/1‑71 (MQ=255)
cgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGcc > 1:2090379/1‑71 (MQ=255)
gCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGa > 1:1527728/1‑71 (MQ=255)
cACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:1668501/71‑1 (MQ=255)
aCCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGtata < 1:1462145/71‑1 (MQ=255)
aCCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATa < 1:2735455/71‑1 (MQ=255)
cATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAg > 1:972171/1‑71 (MQ=255)
ttGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGc > 1:922520/1‑71 (MQ=255)
ttGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGc > 1:2047034/1‑71 (MQ=255)
ttGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGc > 1:1698064/1‑71 (MQ=255)
tGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCg > 1:2394883/1‑71 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGt > 1:2434305/1‑71 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGt > 1:2412190/1‑71 (MQ=255)
ccTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATaa > 1:2849537/1‑65 (MQ=255)
ccTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATaa > 1:3215591/1‑65 (MQ=255)
ccTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGtt < 1:1626123/71‑1 (MQ=39)
tGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTa > 1:3633491/1‑71 (MQ=39)
gATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGt > 1:2083478/1‑67 (MQ=255)
gATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTAc > 1:862347/1‑71 (MQ=39)
aTGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTAcg < 1:3194471/71‑1 (MQ=39)
aTGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTAc < 1:2836967/70‑1 (MQ=40)
cGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:1553886/56‑1 (MQ=255)
aCGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgca < 1:2175251/71‑1 (MQ=39)
ttACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatc > 1:644828/1‑69 (MQ=40)
gcgcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:2559889/67‑1 (MQ=11)
gcgcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:2135614/67‑1 (MQ=11)
aCCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccgg > 1:1864280/1‑70 (MQ=40)
gcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag < 1:2193354/70‑2 (MQ=11)
gcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag < 1:3312398/70‑2 (MQ=11)
gcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatc > 1:2263847/2‑65 (MQ=11)
gcGTCTTATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCgg > 1:108496/2‑44 (MQ=11)
gcGTCTTATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGTTTATGCCgcatccggcag > 1:3188136/2‑70 (MQ=11)
gTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcagtt < 1:2350782/71‑4 (MQ=11)
cTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccggcatcc > 1:75634/1‑69 (MQ=40)
ttATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGtt < 1:3485050/49‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGtt < 1:3246850/49‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGtt < 1:2229522/49‑1 (MQ=11)
ttATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAg > 1:245724/1‑71 (MQ=255)
tATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCAcgccgc < 1:2620764/56‑1 (MQ=11)
tATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatcc < 1:2685157/60‑1 (MQ=11)
aTCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGa < 1:1594343/68‑1 (MQ=255)
aTCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAg < 1:814902/69‑1 (MQ=255)
aTCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCa > 1:3421221/1‑71 (MQ=255)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcat > 1:3670952/1‑56 (MQ=11)
tCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGa < 1:2008335/67‑1 (MQ=255)
tCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCa < 1:1098202/70‑1 (MQ=255)
cAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCAc > 1:3127716/1‑70 (MQ=255)
atgCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCg < 1:1631977/40‑1 (MQ=14)
ccTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTg < 1:70359/71‑1 (MQ=255)
tACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGtt < 1:1105033/39‑1 (MQ=40)
aCAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCTAg > 1:491038/1‑60 (MQ=255)
aCAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCAcc < 1:783144/64‑1 (MQ=255)
cAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag > 1:2898298/1‑53 (MQ=11)
cAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag > 1:1196675/1‑53 (MQ=11)
cAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTa > 1:1801825/1‑39 (MQ=40)
cAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccggca < 1:1610931/53‑1 (MQ=35)
aaaCTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTAc > 1:3417190/1‑39 (MQ=40)
aaCTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGAt > 1:115674/1‑71 (MQ=255)
aaCTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGAt > 1:999915/1‑71 (MQ=255)
gtgCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGAc > 1:633180/1‑71 (MQ=255)
gtgCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGAc > 1:2354274/1‑71 (MQ=255)
gAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGAt < 1:2182144/60‑1 (MQ=255)
aCCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTAcgc > 1:2557321/1‑71 (MQ=40)
cGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGt < 1:1431032/71‑1 (MQ=39)
tAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCt > 1:3941135/1‑71 (MQ=39)
ggCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTa > 1:3660796/1‑71 (MQ=39)
ggCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTa < 1:1966153/71‑1 (MQ=39)
ggCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTa < 1:3248760/71‑1 (MQ=39)
|
CGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTA > minE/337088‑337225
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
