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 I2 R1
|
758 |
59.3 |
2864096 |
93.9% |
2689386 |
105.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,696,452 |
(A)5→4 |
intergenic (‑381/+10) |
uidA ← / ← uidR |
beta‑D‑glucuronidase/transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,696,448 | 0 | A | . | 95.9%
| 185.3
/ 2.2
| 49 | intergenic (‑377/+14) | uidA/uidR | beta‑D‑glucuronidase/transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base . (25/22); total (26/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
ATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTAAA > NC_000913/1696313‑1696582
|
aTTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaa < 1:1022647/139‑1 (MQ=255)
tGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaaga > 2:1316038/1‑137 (MQ=255)
ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga < 2:761154/139‑5 (MQ=255)
ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga < 1:1316038/139‑5 (MQ=255)
gATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGaa > 2:1016066/1‑139 (MQ=255)
aTAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAAt > 2:942133/1‑139 (MQ=255)
aTAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAAt > 2:467101/1‑139 (MQ=255)
tcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGc < 2:1017179/139‑1 (MQ=255)
tGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGt < 2:523697/139‑1 (MQ=255)
tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAgg < 2:591816/125‑1 (MQ=255)
tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAgg > 1:591816/1‑125 (MQ=255)
aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCaa > 1:1262445/1‑139 (MQ=255)
tGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaa < 2:754408/101‑1 (MQ=255)
tGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaa > 1:754408/1‑101 (MQ=255)
aaTATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatcat < 2:1262445/139‑1 (MQ=255)
atatTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatcatc < 1:1016066/139‑1 (MQ=255)
ttGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCa > 1:1408302/1‑106 (MQ=255)
ttGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCa < 2:1408302/106‑1 (MQ=255)
ttGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcgcgcg > 1:1255493/1‑139 (MQ=255)
ggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGAt < 1:44469/106‑1 (MQ=255)
ggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGAt > 2:44469/1‑106 (MQ=255)
ggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAAt > 2:1293974/1‑139 (MQ=255)
aTAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCAcgcg > 2:838636/1‑139 (MQ=255)
tAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg < 2:247202/105‑1 (MQ=255)
tAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg > 1:247202/1‑105 (MQ=255)
gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGc < 1:671913/74‑1 (MQ=255)
gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGc > 2:671913/1‑74 (MQ=255)
gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACAAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCtt > 2:137588/1‑139 (MQ=255)
cacaGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATa < 1:212027/83‑1 (MQ=255)
cacaGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATa > 2:212027/1‑83 (MQ=255)
cacaGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTc < 2:1255493/139‑1 (MQ=255)
cacaGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTc < 1:942133/139‑1 (MQ=255)
cacaGAGAAATTACGATATGAAACGCGGGCACAGTTATCACAAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTc < 1:137588/139‑1 (MQ=255)
ttACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata < 1:983903/139‑1 (MQ=255)
atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCt > 2:1110592/1‑93 (MQ=255)
atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCt < 1:1110592/93‑1 (MQ=255)
atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc > 2:866958/1‑139 (MQ=255)
atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc < 1:838636/139‑1 (MQ=255)
atGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg < 2:1363595/79‑1 (MQ=255)
atGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg > 1:1363595/1‑79 (MQ=255)
atGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCa > 2:812567/1‑139 (MQ=255)
gAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGtt > 1:728101/1‑58 (MQ=255)
gAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGtt < 2:728101/58‑1 (MQ=255)
aaCGCGGGCACAGTTATCACCAGCCCGCCGAAAAGAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGt > 2:366292/1‑139 (MQ=255)
aaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGCTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTac > 2:1345948/1‑139 (MQ=255)
cacaGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAgg < 1:812567/139‑1 (MQ=255)
acaGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCt > 1:824269/1‑78 (MQ=255)
acaGTTATCACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCt < 2:824269/78‑1 (MQ=255)
tATCACCAGCCCGCCGAAAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGa < 1:344234/139‑1 (MQ=255)
cACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATc < 2:356466/113‑1 (MQ=255)
cACCAGCCCGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATc > 1:356466/1‑113 (MQ=255)
cccGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa < 1:149117/115‑1 (MQ=255)
cccGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa > 2:149117/1‑115 (MQ=255)
cccGCCG‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTa > 2:549745/1‑139 (MQ=255)
cgccg‑AAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTaaa > 1:397976/1‑139 (MQ=255)
|
ATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAA‑AGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTAAA > NC_000913/1696313‑1696582
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
