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 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
457,689 |
C→A |
22.3% |
H307N (CAC→AAC) |
ybgK → |
predicted enzyme subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 457,689 | 0 | C | A | 22.3%
| 150.5
/ 26.3
| 67 | H307N (CAC→AAC) | ybgK | predicted enzyme subunit |
| Reads supporting (aligned to +/- strand): ref base C (30/22); new base A (12/3); total (42/25) |
| Fisher's exact test for biased strand distribution p-value = 1.40e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01 |
GGAAGAGGCACTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCAGAGCTATTAACGCTGG > minE/457625‑457759
|
ggAAGAGGCACTGAAAGCACGGCAAGATCAACAACGTTATTTCGAACAATTAGCGTGGCGGCTGCACAAt > 1:793842/1‑70 (MQ=255)
ggAAGAGGCACTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAAt > 1:2958328/1‑70 (MQ=255)
gagcttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGa > 1:915889‑M1/56‑71 (MQ=255)
gAAGAGGCACTAAAAGCACGGCAAGATCAGCAACGTTATTTT‑AACAATTAGCGTGGCGGCTGCACAATGaa < 1:1114765/71‑1 (MQ=255)
agcttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGa < 1:2236549‑M1/16‑1 (MQ=255)
gcttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGaaa > 1:3710344‑M1/54‑71 (MQ=255)
gcttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGaaa > 1:3717041‑M1/54‑71 (MQ=255)
gcttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGaaa > 1:2977298‑M1/54‑71 (MQ=255)
gcttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGa > 1:240379‑M1/54‑69 (MQ=255)
gagGCACTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGaaaa < 1:3948132/71‑1 (MQ=255)
cttcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGaaaa > 1:297011‑M1/53‑71 (MQ=255)
tcagtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGAAAAt < 1:5264732‑M1/20‑1 (MQ=255)
gCACTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTg < 1:1744701/71‑1 (MQ=255)
gCACTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTg < 1:3112133/71‑1 (MQ=255)
gtatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGAAAatc > 1:2557310‑M1/48‑67 (MQ=255)
tatgatcccaaagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGaaca > 1:2224193‑M1/47‑58 (MQ=255)
cTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACaa < 1:5033258/59‑1 (MQ=255)
cTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGaa < 1:205400/63‑1 (MQ=255)
cTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGaa < 1:159483/63‑1 (MQ=255)
tAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAAt > 1:5669189/1‑59 (MQ=255)
tAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGa < 1:2727195/68‑1 (MQ=255)
aaaaGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGaa < 1:4995752/61‑1 (MQ=255)
aaaGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAc > 1:1015479/1‑67 (MQ=255)
aaaGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCt < 1:3095273/69‑1 (MQ=255)
aaaGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTg > 1:856055/1‑70 (MQ=255)
aGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAAc < 1:4796028/71‑1 (MQ=255)
gCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGaaaa > 1:2377816/1‑59 (MQ=255)
cGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGcc > 1:1941208/1‑70 (MQ=255)
cGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGcc > 1:3988515/1‑70 (MQ=255)
cGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCg < 1:471770/71‑1 (MQ=255)
aagtttatgatgaatatcgtaagacgaagcgggcggGGCGGTTGAACAATGAAAAt > 1:1064855‑M1/37‑56 (MQ=255)
cAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAc > 1:4074634/1‑58 (MQ=255)
aaGATCAGCAACGTTATTTTGAAGAATTAGCGTGGCGGCTGCACAATGAAAATTGACCt < 1:1424377/59‑1 (MQ=255)
aaGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAcc > 1:2400825/1‑58 (MQ=255)
aaGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAcc > 1:2918116/1‑58 (MQ=255)
aaGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAcc > 1:170246/1‑58 (MQ=255)
aGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTg > 1:4701182/1‑71 (MQ=255)
gATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGa < 1:5634265/47‑1 (MQ=255)
gATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGa < 1:1830136/47‑1 (MQ=255)
gATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGa < 1:3226732/47‑1 (MQ=255)
aTCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAc > 1:1799424/1‑54 (MQ=255)
tCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGc > 1:971858/1‑71 (MQ=255)
cAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGc > 1:739114/1‑70 (MQ=255)
aaCGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAgg > 1:2989288/1‑71 (MQ=255)
gTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTgg < 1:3048413/61‑1 (MQ=255)
atcgtaagacgaagcgggcggGGCGGTTGAACAATGAAAAt > 1:2239276‑M1/22‑41 (MQ=255)
ttATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTgc < 1:1072977/71‑1 (MQ=255)
tcgtaagacgaagcgggcggGGCGGTTGAACAATGa > 1:5139085‑M1/21‑36 (MQ=255)
tcgtaagacgaagcgggcggGGCGGTTGAACAATGa > 1:2228061‑M1/21‑36 (MQ=255)
tcgtaagacgaagcgggcggGGCGGTTGAACAATGa > 1:3376426‑M1/21‑36 (MQ=255)
aTTTTGAACAATTAGCGTGGCGGCTGCACAATGaaa > 1:3144296/1‑36 (MQ=255)
aTTTTGAACAATTAGCGTGGCGGCTGCACAATGaaa > 1:2802601/1‑36 (MQ=255)
aTTTTGAACAATTAGCGTGGCGGCTGCACAATGaaa > 1:4838057/1‑36 (MQ=255)
aTTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTgcgc > 1:698919/1‑71 (MQ=255)
aTTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTgcgc > 1:2433623/1‑71 (MQ=255)
ttttGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGa > 1:4298451/1‑40 (MQ=255)
ttttGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAc > 1:5306963/1‑41 (MQ=255)
ttttGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGAc > 1:5107746/1‑41 (MQ=255)
ttttGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATc > 1:2187942/1‑54 (MQ=255)
aagacgaagcgggcggGGCGGTTGAACAATGAAAAt < 1:4967640‑M1/20‑1 (MQ=255)
tGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAgg > 1:1472115/1‑61 (MQ=255)
tGAACAATTAGCGTGGCGGCTCCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAgg > 1:3549911/1‑61 (MQ=255)
aaTTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCt < 1:1749936/58‑1 (MQ=255)
aaTTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCt < 1:793860/58‑1 (MQ=255)
tAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCa > 1:3027193/1‑69 (MQ=255)
aGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCagag > 1:3856260/1‑71 (MQ=255)
ggcTGCACAATGAAAATTGACCTGAACGCCGATCTGGGGGAAGGCTGCGCCAGCGACGCAGAGCTATTAAc < 1:1462941/71‑1 (MQ=255)
cTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCAGAGCTATTAACGc < 1:107209/71‑1 (MQ=255)
cacaATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCAGAGCTATTAACGCTgg > 1:2965180/1‑71 (MQ=255)
cacaATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCAGAGCTATTAACGCTgg > 1:3414952/1‑71 (MQ=255)
|
GGAAGAGGCACTAAAAGCACGGCAAGATCAGCAACGTTATTTTGAACAATTAGCGTGGCGGCTGCACAATGAAAATTGACCTGAACGCCGATCTGGGCGAAGGCTGCGCCAGCGACGCAGAGCTATTAACGCTGG > minE/457625‑457759
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
