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 |
2,058,584 |
T→A |
37.2% |
I167I (ATT→ATA) |
ttdB → |
L‑tartrate dehydratase, beta subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,058,584 | 0 | T | A | 37.2%
| 36.1
/ 42.5
| 51 | I167I (ATT→ATA) | ttdB | L‑tartrate dehydratase, beta subunit |
| Reads supporting (aligned to +/- strand): ref base T (17/15); new base A (7/12); total (24/27) |
| Fisher's exact test for biased strand distribution p-value = 3.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCTCGGAATGCCGGAGTCACTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAACGC > minE/2058517‑2058638
|
agCTCGGAATGCCGGAGTCACTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt > 1:2745558/1‑68 (MQ=255)
aGTCGCTGTGGGTCTGCCGGGTCAAAGAGTTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:833042/1‑69 (MQ=255)
aGTCGCTGTGGGTCTGCCGGGTCAAAGAGTTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:3402253/1‑69 (MQ=255)
aGTCGCTGTGGGTCTGCCGGGTCAAAGAGTTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:2832878/1‑69 (MQ=255)
aGTCGCTGTGGGTCTGCCGGGTCAAAGAGTTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:2667356/1‑69 (MQ=255)
aGTCGCTGTGGGTCTGCCGGGTCAAAGAGTTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:2206535/1‑69 (MQ=255)
aGTCGCTGTGGGTCTGCCGGGTCAAAGAGGTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:2392502/1‑69 (MQ=255)
aGTCGCTGTGGGTCTGACGGGTCAAAGAGTTTGGCCCGCTGATTGTCTCTATAGATACCCACGGcaaca > 1:988414/1‑69 (MQ=255)
aGTCACTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGcaaca < 1:300195/69‑1 (MQ=255)
aCTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:1251383/49‑1 (MQ=255)
aCTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:685725/49‑1 (MQ=255)
aCTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:590331/49‑1 (MQ=255)
aCTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:2749817/49‑1 (MQ=255)
aCTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:1936344/49‑1 (MQ=255)
aCTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:3367173/49‑1 (MQ=255)
cTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:267786/48‑1 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGc < 1:1001652/55‑1 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGc < 1:2517867/55‑1 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGc < 1:288807/55‑1 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGc < 1:2262081/55‑1 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCt > 1:2137630/1‑63 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCt > 1:1880131/1‑63 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCt > 1:1284372/1‑63 (MQ=255)
ggTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCt > 1:2747004/1‑63 (MQ=255)
ggTCTGCCCGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCt > 1:393993/1‑63 (MQ=255)
cTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCg > 1:1710134/1‑68 (MQ=255)
tGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTAtt < 1:2010084/39‑1 (MQ=255)
aaaGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAg > 1:31444/1‑69 (MQ=255)
aaaGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAg > 1:1094374/1‑69 (MQ=255)
aaaGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAg > 1:1433336/1‑69 (MQ=255)
aaaGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAg > 1:1828870/1‑69 (MQ=255)
cGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCg > 1:1157545/1‑68 (MQ=255)
cTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:2920825/69‑1 (MQ=255)
cTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:2185553/69‑1 (MQ=255)
tGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:3419048/68‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg > 1:2508929/1‑55 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg > 1:1384725/1‑55 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:464861/55‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:1845609/55‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:3420272/55‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:3395705/55‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:1941775/55‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:2974110/55‑1 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg > 1:2329550/1‑55 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg > 1:2877199/1‑55 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg > 1:2827089/1‑55 (MQ=255)
gATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg > 1:2333486/1‑55 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAgcgc < 1:722237/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:1198672/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:3040278/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:978565/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:1456256/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:170299/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:650859/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:641135/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:2962912/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:113278/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:1366253/64‑1 (MQ=255)
tGTCTCTATAGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAAcgc < 1:3010492/64‑1 (MQ=255)
gTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTg < 1:3373693/51‑1 (MQ=255)
|
AGCTCGGAATGCCGGAGTCACTGTGGGTCTGCCGGGTCAAAGAGTTCGGCCCGCTGATTGTCTCTATTGATACCCACGGCAACAACCTGATAGCCGAAAACAAAAAGCTGTTCGCCGAACGC > minE/2058517‑2058638
|
| 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
