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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
337,157 |
C→A |
35.5% |
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 | 35.5%
| 93.0
/ 45.1
| 59 | intergenic (+129/+187) | ybaQ/copA | predicted DNA‑binding transcriptional regulator/copper transporter |
| Reads supporting (aligned to +/- strand): ref base C (13/25); new base A (4/17); total (17/42) |
| Fisher's exact test for biased strand distribution p-value = 2.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.14e-01 |
CGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTAT > minE/337088‑337226
|
cgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGcc > 1:3645992/1‑71 (MQ=39)
gCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGa > 1:2769352/1‑71 (MQ=255)
gCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGa > 1:2203401/1‑71 (MQ=255)
cACCGTTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:841036/71‑1 (MQ=255)
cACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:4611801/71‑1 (MQ=255)
cACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:3458981/71‑1 (MQ=255)
aTTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:1673968/67‑1 (MQ=255)
aTTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAgg > 1:3156300/1‑71 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATaa > 1:1919618/1‑66 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAg > 1:5474537/1‑67 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAg > 1:3132075/1‑67 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCg < 1:1366499/70‑1 (MQ=40)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGt > 1:1283872/1‑71 (MQ=39)
aTGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:31433/59‑1 (MQ=255)
cGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTAcgccg < 1:2408332/71‑1 (MQ=39)
cGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcat < 1:1080292/71‑1 (MQ=39)
cTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatcc < 1:277113/71‑1 (MQ=39)
cTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatcc > 1:4314238/1‑71 (MQ=39)
gcgcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:709523/67‑1 (MQ=11)
aCCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccgg > 1:2097000/1‑70 (MQ=40)
tCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag < 1:5343446/68‑2 (MQ=11)
tCTTATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGttt < 1:2583956/52‑1 (MQ=11)
tCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgca < 1:4141989/60‑1 (MQ=35)
cTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCg > 1:1829399/1‑48 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCg < 1:3592969/47‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:712778/63‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:4532308/63‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:3746486/63‑1 (MQ=11)
tATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGAt < 1:2194573/40‑1 (MQ=14)
aTCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAgg < 1:1529795/43‑1 (MQ=14)
aTCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAgg < 1:3865459/43‑1 (MQ=14)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:2441412/46‑1 (MQ=11)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:2434942/46‑1 (MQ=11)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:3298669/46‑1 (MQ=11)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgca < 1:2503124/55‑1 (MQ=11)
tgCCTACAAACTTGTGCCTGAACGGTAGGACGGATaa > 1:295680/2‑37 (MQ=14)
tgCCTACAAACTTGTGCCTGAACGGTAGGACGGATaa > 1:1375014/2‑37 (MQ=14)
gCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCAtt > 1:123370/1‑71 (MQ=255)
tACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:82049/39‑1 (MQ=14)
tACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggc < 1:3542284/54‑1 (MQ=11)
tACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggc < 1:4483043/54‑1 (MQ=11)
tACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggc < 1:5498161/54‑1 (MQ=11)
tACAAACTTGTGCCTGAACCGTAGGCCGGATAAgg < 1:352773/35‑1 (MQ=40)
tACAAACTTGTGCCTGAACCGTAGGCCGGATAAgg < 1:667819/35‑1 (MQ=40)
tACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccggcatccg < 1:3597628/59‑1 (MQ=255)
tACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgca < 1:3936632/48‑1 (MQ=38)
tACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgca < 1:18786/48‑1 (MQ=38)
tACAAACTTGTGCCGGATCTGTAGGCCGGATAAGGCGTTTAtgccg < 1:3856010/46‑1 (MQ=11)
tACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGtt < 1:1356805/39‑1 (MQ=14)
tACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGTTTAtgccg < 1:3556127/46‑1 (MQ=11)
tACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGTTTAtgccg < 1:2684260/46‑1 (MQ=11)
cAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag > 1:376778/1‑53 (MQ=11)
cAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccggca > 1:5661101/1‑53 (MQ=35)
cAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCt < 1:2854365/70‑1 (MQ=255)
cAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCt > 1:3725036/1‑70 (MQ=255)
aCTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATg < 1:2371740/71‑1 (MQ=255)
ttGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgca < 1:4301067/41‑1 (MQ=32)
ccTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCt < 1:5197011/71‑1 (MQ=255)
gTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTc > 1:3501097/1‑71 (MQ=39)
gCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTAt < 1:4111953/71‑1 (MQ=39)
|
CGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACGCGTCTTAT > minE/337088‑337226
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
