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 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,057,328 |
T→C |
23.7% |
I51I (ATT→ATC) |
ttdA → |
L‑tartrate dehydratase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,057,328 | 0 | T | C | 23.7%
| 104.5
/ 26.7
| 84 | I51I (ATT→ATC) | ttdA | L‑tartrate dehydratase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (8/56); new base C (12/8); total (20/64) |
| Fisher's exact test for biased strand distribution p-value = 5.67e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.65e-01 |
GTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAG > minE/2057275‑2057391
|
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGAt > 1:2176399/1‑68 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg < 1:1078419/69‑1 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg > 1:1112123/1‑69 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg > 1:2678908/1‑69 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg > 1:2681250/1‑69 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg > 1:2133974/1‑69 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg < 1:2002868/69‑1 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg > 1:1971809/1‑69 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg < 1:3313533/69‑1 (MQ=255)
gtggATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATg > 1:3339071/1‑69 (MQ=255)
aaaCTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTc < 1:2646539/66‑1 (MQ=255)
aaaCTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTc < 1:2186976/66‑1 (MQ=255)
aaaCTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTc < 1:1729130/66‑1 (MQ=255)
tAAAACAGCTAATGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:145860/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGtt > 1:2314110/1‑61 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:619726/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:2932323/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:3385945/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:701881/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:2715345/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:3243969/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:2704720/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:2350392/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:1192590/1‑62 (MQ=255)
tAAAACAGCTAAAGGATGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTc > 1:448849/1‑62 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACGACATGCAAAAAGCGa < 1:2295570/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:753770/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:2263454/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:923352/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:2739394/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:2210459/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:3169532/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:2137091/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:676031/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:3171202/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:1945227/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:163602/68‑1 (MQ=255)
ggATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:1750540/68‑1 (MQ=255)
gATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:3374817/67‑1 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:457099/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:986892/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:2531897/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:1235983/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:1381529/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:2292540/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:1892023/69‑3 (MQ=255)
aTGCCGAAACATCGTCGATGGGAAAAATCATCTACCACACGATGTTCGATAACATGCAAAAAGCGAtcg < 1:193624/69‑3 (MQ=255)
cGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:2564279/62‑1 (MQ=255)
gtcgtcGATGGGGATAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:1649993/56‑1 (MQ=255)
tcgtcgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGt < 1:3377644/69‑1 (MQ=255)
tcgtcgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGt < 1:13653/69‑1 (MQ=255)
tcgtcgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGt < 1:42215/69‑1 (MQ=255)
gtcgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcc > 1:1523254/1‑69 (MQ=255)
tcgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGa < 1:1676378/52‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:2323538/69‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:1089296/69‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:575733/69‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:2223423/69‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:339634/69‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:329106/69‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcct < 1:1823255/68‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcct < 1:794749/68‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcct < 1:2649686/68‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcct < 1:3028901/68‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcct < 1:3156365/68‑1 (MQ=255)
cgATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcct < 1:38067/68‑1 (MQ=255)
gATTGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:464905/68‑1 (MQ=255)
gATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:1218020/68‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:2205985/69‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:2195571/69‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:920520/69‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:820131/69‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:3374923/69‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:2901710/69‑1 (MQ=255)
ggggAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctgcctg < 1:186368/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:636628/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:2357605/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:2425256/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:1476328/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:1986028/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:457640/69‑1 (MQ=255)
aaaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:925349/69‑1 (MQ=255)
aaaTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAg < 1:3314144/68‑1 (MQ=255)
aTTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTcctg < 1:3434485/58‑1 (MQ=255)
|
GTGGATAAACTAAAACAGCTAAAGGATGCCGAAACGTCGTCGATGGGGAAAATTATCTACCATACGATGTTCGACAACATGCAAAAAGCGATTGACCTGAATCGTCCTGCCTGTCAG > minE/2057275‑2057391
|
| 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
