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 |
|
A5 F216 I0 R1
|
247 |
44.8 |
1629152 |
98.0% |
1596568 |
139.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,449,050 |
T→A |
13.2% |
intergenic (+32/+26) |
feaB → / ← tynA |
phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,449,050 | 0 | T | A | 13.2%
| 110.0
/ 9.6
| 38 | intergenic (+32/+26) | feaB/tynA | phenylacetaldehyde dehydrogenase/tyramine oxidase, copper‑requiring |
| Reads supporting (aligned to +/- strand): ref base T (17/16); new base A (2/3); total (19/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.81e-01 |
TTGACGCTAACTTACCGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATTCGGTCGGCATAATCGGCCACTCTTCGGCGCGG > NC_000913/1448906‑1449187
|
ttGACGCTAACTTACCGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGt < 4:165435/148‑1 (MQ=255)
tAACTTACCGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGtttt > 2:200302/1‑149 (MQ=255)
aaCTTACCGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCAGGTGCCGtttt < 3:126912/148‑1 (MQ=255)
tACCGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTg < 4:35821/148‑1 (MQ=255)
ccGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCt < 1:200302/149‑1 (MQ=255)
gtggGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACa < 3:402463/148‑1 (MQ=255)
gggATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATc > 1:41936/1‑149 (MQ=255)
tGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACt > 4:316286/1‑148 (MQ=255)
cAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGt < 1:227990/129‑1 (MQ=255)
cAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGt > 2:227990/1‑129 (MQ=255)
tCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTAtctttct > 1:294672/1‑149 (MQ=255)
ggAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACt > 1:344403/1‑137 (MQ=255)
ggAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACt < 2:344403/137‑1 (MQ=255)
aCGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAgc > 3:170630/1‑148 (MQ=255)
ccGTGATTTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCAGGTGCCGttt < 1:659/110‑1 (MQ=255)
ccGTGATTTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCAGGTGCCGttt > 2:659/1‑110 (MQ=255)
tGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATTTTTCTTCAGCGCCCCTAGc > 2:223005/1‑149 (MQ=255)
tttGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGtt < 4:170630/148‑1 (MQ=255)
ccGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTc < 2:294672/149‑1 (MQ=255)
aCTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGGTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGt > 4:292648/1‑148 (MQ=255)
aCGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGt < 3:251/148‑1 (MQ=255)
gTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTcc < 4:353252/148‑1 (MQ=255)
gTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTCTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTcc < 4:28647/148‑1 (MQ=255)
gAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTc < 3:316286/148‑1 (MQ=255)
aaaCTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTcag > 2:391267/1‑149 (MQ=255)
tAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGtttt > 2:110666/1‑68 (MQ=255)
tAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGtttt < 1:110666/68‑1 (MQ=255)
tACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTTTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTGGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATtc > 1:333065/1‑149 (MQ=255)
aTCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATTCGGTCGGCAt > 3:237042/1‑148 (MQ=255)
cATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATTCGGTCGGCATAATCGGCCActc > 3:108656/1‑148 (MQ=255)
tAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCg > 3:126456/1‑73 (MQ=255)
tAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCg < 4:126456/73‑1 (MQ=255)
aaaaCGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATTCGGTCGGCATAATCGGCCACTCTTCGGCGCgg < 2:333065/149‑1 (MQ=255)
aaaaCGGCACCAGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGt > 1:146638/1‑87 (MQ=255)
aaaaCGGCACCAGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGt < 2:146638/87‑1 (MQ=255)
aaaCGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATTCGGTCGGCATAATCGGCCACTCTTCGGCGCgg > 4:369115/1‑148 (MQ=255)
cGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTc > 4:276801/1‑94 (MQ=255)
cGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTc < 3:276801/94‑1 (MQ=255)
|
TTGACGCTAACTTACCGTTTGGTGGGATGAAGCAGTCAGGAACGGGCCGTGA‑TTTTGGCCCCGACTGGCTGGACGGTTGGTGTGAAACTAAGTCGGTGTGTGTACGGTATTAATCTGGTTCGCTCATAAGTAAAAAACGGCACCTGGTGCCGTTTTTTTGTCTGAAACAATCACTTATCTTTCTTCAGCGCCCCTAGCGTTGGCGTTTCGTCAAAGAAGTTCCATGGTTTCAGCAGAGTATGTACCCATTCGGTCGGCATAATCGGCCACTCTTCGGCGCGG > NC_000913/1448906‑1449187
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
