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 I1 R1
|
182 |
31.9 |
1789978 |
98.5% |
1763128 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,184,476 |
(A)7→8 |
intergenic (‑10/‑364) |
ribB ← / → ubiK |
3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/ubiquinone biosynthesis accessory factor UbiK |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,184,469 | 1 | . | A | 94.1%
| 58.2
/ ‑2.7
| 17 | intergenic (‑3/‑371) | ribB/ubiK | 3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase/ubiquinone biosynthesis accessory factor UbiK |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (7/9); total (7/10) |
| 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 |
CTTCACGCAGCGCAGCCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGT‑A‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTGGCGGCATATAGC > NC_000913/3184391‑3184534
|
cTTCACGCAGCGCAGCCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGT‑a‑a < 2:545846/81‑1 (MQ=255)
ttCACGCAGCGCAGCCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGT‑a‑a > 1:545879/1‑80 (MQ=255)
aCGCAGCGCAGCCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGT‑a‑aaaa < 2:545847/80‑1 (MQ=255)
agcgcagcCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGT‑a‑aaaaaaacc > 2:545889/1‑78 (MQ=255)
agcCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCAc > 1:545892/1‑80 (MQ=255)
gcCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACt > 2:545862/1‑80 (MQ=255)
ccAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTaa < 1:545848/81‑1 (MQ=255)
cAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTaaa < 2:545849/81‑1 (MQ=255)
cGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGaa < 2:545850/81‑1 (MQ=255)
gTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAAt < 2:545851/81‑1 (MQ=255)
ggCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAg > 1:545886/1‑81 (MQ=255)
gCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGt < 1:545852/81‑1 (MQ=255)
aCCAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCt > 2:545881/1‑79 (MQ=255)
ccAAAAGAGGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTa < 1:545853/80‑1 (MQ=255)
agGAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTggc < 1:545854/81‑1 (MQ=255)
agGAAAGTAGCGTCTGATTCATGGT‑ATAAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTggc < 2:545855/81‑1 (MQ=255)
ggAAAGTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTggcg > 2:545888/1‑81 (MQ=255)
gTAGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTGGCGGCata < 1:545856/81‑1 (MQ=255)
aGCGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTGGCGGCata > 1:545887/1‑79 (MQ=255)
cGTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTGGCGGCATATAGc < 2:545857/81‑1 (MQ=255)
gTCTGATTCATGGTAA‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTGGCGGCATATAGc > 1:545900/1‑80 (MQ=255)
|
CTTCACGCAGCGCAGCCAGTGCATTTTCAACACGTTCGAAAGGCGTACCAAAAGAGGAAAGTAGCGTCTGATTCATGGT‑A‑AAAAAACCTCACTAAAATTATGGTTACCAGAATCAGGGCAGTCTTAGGAGTGGCGGCATATAGC > NC_000913/3184391‑3184534
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
