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 |
1,481,284 |
T→G |
34.2% |
A362A (GCT→GCG) |
glpA → |
sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,481,284 | 0 | T | G | 34.2%
| 63.2
/ 61.5
| 79 | A362A (GCT→GCG) | glpA | sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base T (17/35); new base G (20/7); total (37/42) |
| Fisher's exact test for biased strand distribution p-value = 7.48e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.68e-03 |
CGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACTG > minE/1481219‑1481342
|
ggcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:1085324/66‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:1045210/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:2368819/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:2203096/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:21939/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:2593614/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:2055344/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:2035998/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:2007900/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:1989093/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:3120416/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:3167952/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:1703422/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:3302229/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:160457/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:775701/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:717609/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:624980/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:122497/67‑1 (MQ=255)
cgcgATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTg < 1:556618/67‑1 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:3425078/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:674748/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:2160957/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:2971005/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:362531/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:1938256/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:353402/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:3157910/1‑68 (MQ=255)
aTGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATgg > 1:1410876/1‑68 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:3031156/65‑1 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:3116875/65‑1 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:1006317/65‑1 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:2453045/65‑1 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:251448/65‑1 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:1147229/65‑1 (MQ=255)
atcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt < 1:1901328/65‑1 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGc > 1:860095/1‑52 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGAcgccg > 1:2239019/1‑61 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGAcgccg > 1:1172525/1‑61 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGAcgccg > 1:3147149/1‑61 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:2342331/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:981867/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:871866/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:781810/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:1058631/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:501529/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:1616339/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:3271032/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:1867345/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:3046202/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:2345436/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:271791/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:2850545/1‑64 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGTATga > 1:2243668/1‑67 (MQ=255)
tcaccatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGAGGAATGGGCTACCGACGCCGt > 1:1512343/1‑64 (MQ=255)
tcacaatcaccGGTGGCAAACTGATGACCTATCGGCTGATGGCGGAATGGGCTACCGACGCCGt > 1:1265165/1‑64 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGCCGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:1294954/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:2842978/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:2376815/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:821093/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:2476118/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:2168118/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:1747186/1‑69 (MQ=255)
cTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACgcgc > 1:635198/1‑69 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTAc < 1:658572/68‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTAc < 1:821843/68‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:3136174/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:2643409/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:2787748/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:808827/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:1795713/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:3408221/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:900938/69‑1 (MQ=255)
tATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:296483/69‑1 (MQ=255)
aTCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:184107/68‑1 (MQ=255)
aTCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACg < 1:2808916/68‑1 (MQ=255)
ggCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACTg < 1:2018967/69‑1 (MQ=255)
ggCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACTg < 1:1139014/69‑1 (MQ=255)
ggCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACTg < 1:1325981/69‑1 (MQ=255)
|
CGCGATGGTCTGGACGGATTTATCACCATCACCGGTGGCAAACTGATGACCTATCGGCTGATGGCTGAATGGGCTACCGACGCGGTATGCCGCAAACTGGGCAACACGCGCCCCTGTACGACTG > minE/1481219‑1481342
|
| 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
