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 |
2,966,357 |
A→G |
50.0% |
Q155Q (CAA→CAG) |
deoB → |
phosphopentomutase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,966,357 | 0 | A | G | 50.0%
| ‑4.7
/ 64.1
| 70 | Q155Q (CAA→CAG) | deoB | phosphopentomutase |
| Reads supporting (aligned to +/- strand): ref base A (10/25); new base G (9/26); total (19/51) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCGCTAATCTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAG > minE/2966295‑2966423
|
cgcgCTAATCTGCCGGGTTACCTCGGTAACTTCCACTCTTCCGGTACGGTCATTCTGGATCAACTggg > 1:278124/1‑68 (MQ=255)
cgcgCTAATCTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTggg > 1:3387352/1‑68 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:489703/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:1029239/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:2472517/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:2997941/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:219796/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:212006/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:2048196/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:1875029/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:885410/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:1611769/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGACcac < 1:2657961/69‑1 (MQ=255)
cTGCCGGGTTACCTCGGTAACTGCCACTCTTCAGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGcac < 1:557249/69‑1 (MQ=255)
gggTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGaa < 1:425637/69‑1 (MQ=255)
tACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAAcc > 1:2629946/1‑69 (MQ=255)
tACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAAcc > 1:2610107/1‑69 (MQ=255)
tACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAAcc > 1:3260599/1‑69 (MQ=255)
tccTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:506843/67‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTTGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:2277161/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:144346/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:1645590/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:2738312/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:1880282/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:2641628/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:801743/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:3274833/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:3118874/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:2465464/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:2876225/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:2107529/64‑1 (MQ=255)
cGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAGCTGGGCGAAGAGCACATGAAAAcc < 1:352041/64‑1 (MQ=255)
aCTGCCACTCTTCCGGTACGGTCATTCTTGATCAACTGGGCGAAGAGCACATg < 1:2551116/53‑1 (MQ=255)
aCTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATg < 1:679524/53‑1 (MQ=255)
aCTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATg < 1:800000/53‑1 (MQ=255)
cTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATg < 1:1675050/52‑1 (MQ=255)
aCTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:771203/68‑1 (MQ=255)
aCTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2953964/68‑1 (MQ=255)
aCTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2031229/68‑1 (MQ=255)
aCTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2390338/68‑1 (MQ=255)
aCTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2198260/68‑1 (MQ=255)
aCTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2780803/68‑1 (MQ=255)
ctctTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCta < 1:593155/69‑1 (MQ=255)
gTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCTAGCCGATTTTCTATACCTCCg > 1:2964020/1‑69 (MQ=255)
gTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCg > 1:476502/1‑69 (MQ=255)
gTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCg > 1:95858/1‑69 (MQ=255)
gTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCg > 1:582810/1‑69 (MQ=255)
ggTCATTCTTGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:360473/55‑1 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:215792/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:574502/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:2085281/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:2441035/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:1635294/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:1515016/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:1468433/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:416811/1‑69 (MQ=255)
cATTCTGGATCAGCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTc > 1:97069/1‑69 (MQ=255)
aTTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:214835/51‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2774351/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:3349855/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:3248342/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2849132/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2533145/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:2425710/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:1087065/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:1076594/42‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAg < 1:3021173/69‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAg > 1:2966081/1‑69 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAg < 1:1937080/69‑1 (MQ=255)
cAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAg < 1:1460052/69‑1 (MQ=255)
aaCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTc < 1:3381773/41‑1 (MQ=255)
aCTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAg < 1:617994/67‑1 (MQ=255)
|
CGCGCTAATCTGCCGGGTTACCTCGGTAACTGCCACTCTTCCGGTACGGTCATTCTGGATCAACTGGGCGAAGAGCACATGAAAACCGGCAAGCCGATTTTCTATACCTCCGCTGACTCCGTGTTCCAG > minE/2966295‑2966423
|
| 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
