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 I1 R1
|
750 |
51.0 |
2595496 |
93.6% |
2429384 |
106.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,250,629 |
(C)5→6 |
coding (210/1071 nt) |
dhaK ← |
dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,250,624 | 1 | . | C | 96.7%
| 95.5
/ ‑3.0
| 30 | coding (215/1071 nt) | dhaK | dihydroxyacetone kinase, PTS‑dependent, dihydroxyacetone‑binding subunit |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (14/15); total (14/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01 |
GCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑C‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACC > NC_000913/1250492‑1250743
|
gCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCTCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑c‑ccccc > 1:968501/1‑138 (MQ=255)
gCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑c‑ccccc < 2:290443/139‑2 (MQ=255)
gTTAAGAATATCGCCGGTGGAATTTTAGATAATAAACCGTAAACCTTGGCCGCATTCAACTTGCAAGGCGCATTCAAAGCTTTTATCGGGCGTCGGTAAGGTGACAATTTCGCCCGGACAGG‑CGCCTCCAAAGCATccc < 2:968501/139‑1 (MQ=255)
aaTATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAcc < 1:1138124/139‑1 (MQ=255)
atCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGat < 1:560359/139‑1 (MQ=255)
tCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGata < 2:442250/139‑1 (MQ=255)
cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGc > 1:484696/1‑123 (MQ=255)
cGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGc < 2:484696/123‑1 (MQ=255)
gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGat > 1:50525/1‑121 (MQ=255)
gATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGat < 2:50525/121‑1 (MQ=255)
gTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGc > 2:1273786/1‑139 (MQ=255)
tCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCa > 2:760696/1‑139 (MQ=255)
cgccgcCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc < 1:198644/136‑1 (MQ=255)
cgccgcCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTgccgc > 2:198644/1‑136 (MQ=255)
cgccgcCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAc > 2:947628/1‑139 (MQ=255)
cgccgcCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCAc > 2:295846/1‑139 (MQ=255)
aTCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGAcag > 2:958635/1‑139 (MQ=255)
gCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAcc > 1:1122767/1‑83 (MQ=255)
gCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGAcc < 2:1122767/83‑1 (MQ=255)
cgcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGa < 2:1260880/75‑1 (MQ=255)
cgcATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGa > 1:1260880/1‑75 (MQ=255)
tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAg < 2:41059/50‑1 (MQ=255)
tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAg > 1:41059/1‑50 (MQ=255)
tATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCAt < 1:947628/139‑1 (MQ=255)
aTCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATc < 1:958635/139‑1 (MQ=255)
gggCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGc < 1:124020/139‑1 (MQ=255)
gCGTCGGTGAGGTGAAAATTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTc < 1:760696/139‑1 (MQ=255)
aaaaTTTCGGCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAAc > 2:154617/1‑50 (MQ=255)
aaaaTTTCGGCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAAc < 1:154617/50‑1 (MQ=255)
aaaaTTTCCCCCGGCCAGGCC‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACACGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACAcc > 2:305996/1‑139 (MQ=255)
aaTTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGa < 2:464756/42‑1 (MQ=255)
aaTTTCGCCCGGACAGGCC‑CCCCGAAAGCATCCCCTGACCGa > 1:464756/1‑42 (MQ=255)
|
GCTGTTTCAAAGTTAAGAATATCGCCGGTGTAATTTTTGATAATCAACAGTACACCTTCGCCGCCATCAACTTGCATGGCGCATTCAAAGATTTTATCGGGCGTCGGTGAGGTGAAAATTTCGCCCGGACAGG‑C‑CCCCGAAAGCATCCCCTGACCGATATAACCACAGTGCATCGGCTCGTGTCCGCTGCCGCCACCCGACAGCAGGGCGACTTTTCCTGCAACAGGGGCATCAGCTCGGGTGACATACACC > NC_000913/1250492‑1250743
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
