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 |
449,111 |
A→G |
100% |
G409G (GGT→GGC) |
kdpB ← |
potassium translocating ATPase, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 449,111 | 0 | A | G | 83.5%
| 56.5
/ 3.1
| 36 | G409G (GGT→GGC) | kdpB | potassium translocating ATPase, subunit B |
| Reads supporting (aligned to +/- strand): ref base A (6/0); new base G (9/21); total (15/21) |
| Fisher's exact test for biased strand distribution p-value = 2.57e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AGCGGCGTGGCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTC > minE/449046‑449173
|
aGCGGCGTGGCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGaccacc > 1:2248874/1‑68 (MQ=255)
aGCGGCGTGGCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGaccacc > 1:915084/1‑68 (MQ=255)
aGCGGCGTGGCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGaccacc > 1:2631354/1‑68 (MQ=255)
gCTGCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGTTAGCCTc > 1:1646830/1‑68 (MQ=255)
gCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTATGGAAGTGACCACCGTTAGCCTc > 1:182133/1‑68 (MQ=255)
gCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGtt > 1:2476725/1‑62 (MQ=255)
gCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGTTAGCCTc > 1:2760592/1‑68 (MQ=255)
gCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGTTAGCCTc > 1:2196470/1‑68 (MQ=255)
gCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGTTAGCCTc > 1:1849517/1‑68 (MQ=255)
ggcaGGGAAGTGCCCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:443781/4‑69 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCATCATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:2225445/4‑69 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGCCAGAACCTTTACg > 1:637880/4‑63 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCa > 1:1623003/4‑68 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:1754553/4‑69 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:2540300/4‑69 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:1759392/4‑69 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:1281331/4‑69 (MQ=255)
ggcaGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCAt > 1:3212948/4‑69 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCATCATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1050649/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:977065/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:3147274/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:3268597/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:330032/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:3341385/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:3376470/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:409155/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:435481/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:908938/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:2832415/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1059267/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1317115/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1416924/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1547845/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1751327/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1922011/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:2354441/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:2761724/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGGCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:3025353/67‑1 (MQ=255)
caGGGAAGTGACCGCCGTTAGCCTCAACATGGCGCCGAATGGCATCGACAGAACCTTTACGGATCATg < 1:1529007/67‑1 (MQ=255)
accaccGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTc > 1:1807764/1‑66 (MQ=255)
accaccGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTc > 1:162942/1‑66 (MQ=255)
accaccGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTc > 1:3258227/1‑66 (MQ=255)
accaccGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTc > 1:78362/1‑66 (MQ=255)
accaccGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTc > 1:882696/1‑66 (MQ=255)
accaccGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTc > 1:112406/1‑66 (MQ=255)
|
AGCGGCGTGGCTCCCTGACGCGCAACCTGATCGACTTTTTGATCAACATCGGTAGGGAAGTGACCACCGTTAGCCTCAACATGGCGACGAATGGCATCGACAGAACCTTTACGGATCATGCGGTTGTC > minE/449046‑449173
|
| 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
