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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
572,826 |
A→G |
61.1% |
intergenic (‑80/‑346) |
aqpZ ← / → ybjD |
aquaporin/conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 572,826 | 0 | A | G | 61.1%
| 18.7
/ 23.5
| 41 | intergenic (‑80/‑346) | aqpZ/ybjD | aquaporin/conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
| Reads supporting (aligned to +/- strand): ref base A (12/4); new base G (18/7); total (30/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.74e-01 |
TGAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGATAAATAAATCCAGTAAATTTGATTTA > minE/572774‑572894
|
tgAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGc > 1:1286780/1‑62 (MQ=255)
tgAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGc > 1:2689318/1‑62 (MQ=255)
tgAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGc > 1:3169817/1‑62 (MQ=255)
tgAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGc > 1:2244298/1‑62 (MQ=255)
tgAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGc > 1:3030139/1‑62 (MQ=255)
tgAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGAGGc > 1:1932982/1‑62 (MQ=255)
atGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGCTATTTTAAAAACGaa < 1:859167/69‑1 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAaataat > 1:3344582/1‑46 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATgc > 1:2678306/1‑48 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCgg > 1:802801/1‑52 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:3062615/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:2518011/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:428458/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:2864734/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:245910/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:319831/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:3276441/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:3382717/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:590379/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:2283792/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:707268/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:192984/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:187141/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:1373508/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:903631/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATGATGCGCGGCTa > 1:974858/1‑55 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATg > 1:1000151/1‑47 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATg > 1:2017615/1‑47 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATg > 1:712349/1‑47 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATg > 1:420749/1‑47 (MQ=255)
tGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATg > 1:1341407/1‑47 (MQ=255)
aaaaaGTGACGACGGAAATAATGCGCGGCTATTTTAAGAACGAAGGCGAGTCa > 1:2840427/1‑53 (MQ=255)
aaaaaGTGACGACGGAAATAATGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGataaataa < 1:3380732/69‑1 (MQ=255)
aaaaaGTGACGACGGAAATAATGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGataaataa < 1:455087/69‑1 (MQ=255)
aaaaaGTGACGACGGAAATAATGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGataaataa < 1:1123188/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:3098008/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:2486698/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:2242126/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:1909399/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:1513776/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:876929/69‑1 (MQ=255)
ggAAATGATGCGCGGCTATTTTAAAAACGAAGGCAAGTCATTCACCAGATAAATAAATCCAGTAAAttt < 1:1247694/69‑1 (MQ=255)
ataatGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGATAAATAAATCCAGTAAATTTGAtt < 1:1651359/69‑1 (MQ=255)
aatGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGATAAATAAATCCAGTAAATTTGATTTa > 1:2801147/1‑69 (MQ=255)
|
TGAAAAATATGGTCGTTTTATAGGGTCGTCGTAAAAAAGTGACGACGGAAATAATGCGCGGCTATTTTAAAAACGAAGGCGAGTCATTCACCAGATAAATAAATCCAGTAAATTTGATTTA > minE/572774‑572894
|
| 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
