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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,015,493 |
C→T |
12.1% |
K192K (AAG→AAA) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,493 | 0 | C | T | 12.1%
| 177.1
/ 12.9
| 66 | K192K (AAG→AAA) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base C (32/26); new base T (3/5); total (35/31) |
| Fisher's exact test for biased strand distribution p-value = 4.59e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.60e-01 |
CTTCTCAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAG > minE/1015424‑1015561
|
cttctCAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCt > 1:947164/1‑71 (MQ=255)
cttctCAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCt > 1:2457701/1‑71 (MQ=255)
ttctCAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCtt > 1:770460/1‑71 (MQ=255)
ctcGACGAGGAAGTTTTTCAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTg < 1:3394272/70‑1 (MQ=255)
ctcGACGAGGAAGTTTTTCAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTg < 1:486537/70‑1 (MQ=255)
ctcAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGt > 1:1384873/1‑71 (MQ=255)
tcAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGtt > 1:2938573/1‑71 (MQ=255)
aaCCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTg > 1:109881/1‑71 (MQ=255)
gTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTg < 1:1585827/61‑1 (MQ=255)
aaTTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGttt > 1:1472822/1‑62 (MQ=255)
aaTTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGttt > 1:2359568/1‑62 (MQ=255)
gtttttCAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAgccgc < 1:1590002/70‑3 (MQ=255)
tttttCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccacc < 1:678444/71‑1 (MQ=255)
ttttCAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAgccgccg > 1:1557771/1‑70 (MQ=255)
tttCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccaccac > 1:557730/1‑71 (MQ=255)
ttCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTc < 1:3466461/51‑1 (MQ=255)
ttCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTc < 1:3827191/51‑1 (MQ=255)
ttCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAaccaccacc > 1:2378811/1‑71 (MQ=255)
cAGTTTGCCGGGAGTCAGCAGGGCTTTGGTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCt < 1:1077067/70‑1 (MQ=255)
ttCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGc > 1:349173/1‑71 (MQ=255)
tCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGc > 1:3921911/1‑70 (MQ=255)
cccGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa < 1:36554/70‑1 (MQ=255)
ccGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTg < 1:3096924/44‑1 (MQ=255)
ccGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATa > 1:1389115/1‑71 (MQ=255)
ccGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATa < 1:3506317/71‑1 (MQ=255)
cGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCg > 1:736124/1‑50 (MQ=255)
ggCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATa > 1:172658/1‑69 (MQ=255)
ggCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACa < 1:90233/71‑1 (MQ=255)
cGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACaga < 1:2916157/71‑1 (MQ=255)
cGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACa > 1:1100380/1‑69 (MQ=255)
tCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAgg < 1:3298385/71‑1 (MQ=255)
tCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAgg < 1:2600837/71‑1 (MQ=255)
aGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGaa > 1:1375379/1‑71 (MQ=255)
aGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGaa > 1:1298969/1‑71 (MQ=255)
aGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGaa > 1:1823738/1‑71 (MQ=255)
aGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGaa < 1:1532209/71‑1 (MQ=255)
gTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGa > 1:732402/1‑43 (MQ=255)
gTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGa > 1:3221623/1‑43 (MQ=255)
tAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAAtt > 1:1573660/1‑71 (MQ=255)
tAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAAt < 1:2676835/70‑1 (MQ=255)
cGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg > 1:1235750/1‑70 (MQ=255)
cGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGt < 1:1777358/71‑1 (MQ=255)
tttGGTTTCCTGATAGAGATACGTCTTGTTTGCCg > 1:3362137/1‑35 (MQ=255)
ttGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtc > 1:3679953/1‑71 (MQ=255)
tGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTAt < 1:1847334/68‑1 (MQ=255)
aggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGa > 1:3286151/2‑51 (MQ=255)
ggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcg < 1:1133749/70‑1 (MQ=255)
ggTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATtcg < 1:267339/70‑1 (MQ=255)
gTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACtcatc > 1:91304/1‑71 (MQ=255)
gTTTCCTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACtcatc > 1:3637666/1‑71 (MQ=255)
ccTGGTAGAGATACGTTTTGTTGGCAGAGCCGCCGCCTTTCGCAACGCAAAGGAATTTGTACTCATCGcc < 1:2662379/70‑1 (MQ=255)
ccTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGcc < 1:3210899/70‑1 (MQ=255)
ccTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCa > 1:2124460/1‑71 (MQ=255)
aTAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACag < 1:3437939/46‑1 (MQ=255)
aTAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCaa < 1:1264696/71‑1 (MQ=255)
tAGAGATACGTCTTGTTTGCCGAACCACCACCttt < 1:2733750/35‑1 (MQ=255)
agaTACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACgg > 1:1848101/1‑70 (MQ=255)
aTACGTCTTTTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTg < 1:2631744/49‑1 (MQ=255)
tACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATa < 1:3595424/71‑1 (MQ=255)
aCGTCTTGTTTGCCGAACCACCACCTTTGGCGATAc < 1:2608746/36‑1 (MQ=255)
aCGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGt > 1:2922014/1‑48 (MQ=255)
gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATa > 1:3798869/1‑68 (MQ=255)
gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATa > 1:1096192/1‑68 (MQ=255)
gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAg < 1:2973055/71‑1 (MQ=255)
gTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAg < 1:153561/71‑1 (MQ=255)
tCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAAttt > 1:1492585/1‑43 (MQ=255)
tCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGcc < 1:3378794/55‑1 (MQ=255)
tCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATa < 1:1413470/67‑1 (MQ=255)
|
CTTCTCAACCAGGTAATTTTTCAGTTTCCCCGGCGTCAGTAACGCTTTGGTTTCCTGATAGAGATACGTCTTGTTTGCCGAACCACCACCTTTGGCGATACAGAGGAATTTGTATTCGTCGCCATCAACGGCATAAAG > minE/1015424‑1015561
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
