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 |
337,128 |
G→T |
29.4% |
intergenic (+100/+216) |
ybaQ → / ← copA |
predicted DNA‑binding transcriptional regulator/copper transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 337,128 | 0 | G | T | 29.4%
| 144.2
/ 39.8
| 68 | intergenic (+100/+216) | ybaQ/copA | predicted DNA‑binding transcriptional regulator/copper transporter |
| Reads supporting (aligned to +/- strand): ref base G (26/22); new base T (4/16); total (30/38) |
| Fisher's exact test for biased strand distribution p-value = 1.50e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
GGATAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAT > minE/337058‑337187
|
ggATAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAg < 1:617656/71‑1 (MQ=39)
ggATAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAg > 1:5361954/1‑71 (MQ=39)
ggATAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAg < 1:255182/71‑1 (MQ=39)
gATAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAgg < 1:2850960/71‑1 (MQ=39)
aTAAGGCGTTCACGCCGCATCCGGCATCCGCGCCCCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGc > 1:4705287/1‑71 (MQ=255)
tAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGcc > 1:5426725/1‑71 (MQ=39)
tAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGcc > 1:5234925/1‑71 (MQ=39)
ggCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTa < 1:579626/70‑1 (MQ=40)
ggCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTa < 1:3936434/70‑1 (MQ=40)
cGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACTCGTCTTATCAGGCCTACa > 1:222679/1‑70 (MQ=25)
ttCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAAc < 1:268372/71‑1 (MQ=39)
tCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACt > 1:4098414/1‑71 (MQ=39)
tCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACt > 1:4206352/1‑71 (MQ=39)
cACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACtt > 1:3328428/1‑71 (MQ=39)
ccgcATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGc > 1:201713/1‑71 (MQ=39)
gcatccggcatccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCt > 1:5332384/1‑71 (MQ=39)
catccggcatccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTg < 1:5002858/71‑1 (MQ=39)
tccggcatccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACaa < 1:4128991/58‑1 (MQ=35)
tccggcatccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGaa < 1:4903546/71‑1 (MQ=39)
ccggcatccgAGCTCCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACtt < 1:4656307/61‑1 (MQ=255)
cggcatccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAAcc > 1:1167226/1‑71 (MQ=39)
cggcatccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAAcc > 1:1160387/1‑71 (MQ=39)
catccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTa < 1:4643591/71‑1 (MQ=39)
tccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGcc < 1:3464144/46‑1 (MQ=38)
tccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACt < 1:2581297/54‑1 (MQ=38)
tccgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAgg < 1:4124728/71‑1 (MQ=39)
cgAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGcc > 1:3645992/1‑71 (MQ=39)
gCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGa > 1:2203401/1‑71 (MQ=255)
gCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGa > 1:2769352/1‑71 (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)
ttGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTtgtg > 1:2478334/1‑47 (MQ=255)
ttGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTg > 1:2808927/1‑51 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCt > 1:3006852/1‑48 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATaa > 1:1919618/1‑66 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAg > 1:3132075/1‑67 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAg > 1:5474537/1‑67 (MQ=255)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCg < 1:1366499/70‑1 (MQ=40)
gCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGt > 1:1283872/1‑71 (MQ=39)
tGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTtgc < 1:1898891/41‑2 (MQ=255)
tGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTa > 1:2726734/1‑53 (MQ=255)
tGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTa > 1:5067364/1‑53 (MQ=255)
aTGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGAt < 1:31433/59‑1 (MQ=255)
cGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTAcgccg < 1:2408332/71‑1 (MQ=39)
cGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcat < 1:1080292/71‑1 (MQ=39)
cTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatcc > 1:4314238/1‑71 (MQ=39)
cTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatcc < 1:277113/71‑1 (MQ=39)
gcgcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:709523/67‑1 (MQ=11)
aCCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgcatccgg > 1:2097000/1‑70 (MQ=40)
gcGTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAg < 1:3841883/38‑1 (MQ=11)
gTCTTATCATGCCTACAAACTTGTGCCTGAACGGTAgga > 1:2300586/1‑38 (MQ=14)
tCTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccggcag < 1:5343446/68‑2 (MQ=11)
tCTTATCATGCCTACAAACTTGTGCCGGATCGGTAGGCCGGATAAGGCGttt < 1:2583956/52‑1 (MQ=11)
tCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCgca < 1:4141989/60‑1 (MQ=35)
cTTATCATGCCTACAAACTTGTGCCTGAACGGTAg < 1:2725590/35‑1 (MQ=14)
cTTATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCg > 1:1829399/1‑48 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCg < 1:3592969/47‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:4532308/63‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:3746486/63‑1 (MQ=11)
ttATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgcatccgg < 1:712778/63‑1 (MQ=11)
tATCATGCCTACAAACTTGTGCCTGAACGGTAgga > 1:2986557/1‑34 (MQ=14)
tATCATGCCTACAAACTTGTGCCTGAACGGTAgga > 1:3834808/1‑34 (MQ=14)
tATCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGAt < 1:2194573/40‑1 (MQ=14)
aTCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAgg < 1:1529795/43‑1 (MQ=14)
aTCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAgg < 1:3865459/43‑1 (MQ=14)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:2434942/46‑1 (MQ=11)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:2441412/46‑1 (MQ=11)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGtt < 1:3298669/46‑1 (MQ=11)
tCATGCCTACAAACTTGTGCCTGAACGGTAGGACGGATAAGGCGTTCACGCCgca < 1:2503124/55‑1 (MQ=11)
|
GGATAAGGCGTTCACGCCGCATCCGGCATCCGAGCACCATTGCCTGATGCGACGCTTACCCGTCTTATCAGGCCTACAAACTTGTGCCTGAACCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAT > minE/337058‑337187
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
