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 F17 I0 R2
|
159 |
90.8 |
4763082 |
92.7% |
4415377 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,091,167 |
T→C |
8.4% |
E178E (GAA→GAG) |
sufB ← |
component of SufBCD complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,091,167 | 0 | T | C | 8.4%
| 199.5
/ 8.9
| 71 | E178E (GAA→GAG) | sufB | component of SufBCD complex |
| Reads supporting (aligned to +/- strand): ref base T (24/41); new base C (3/3); total (27/44) |
| Fisher's exact test for biased strand distribution p-value = 6.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.37e-01 |
CCGCATTAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTCGCGAT > minE/1091100‑1091237
|
ccgcATTAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTcc < 1:597576/71‑1 (MQ=255)
ccgcATTAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTcc < 1:3368319/71‑1 (MQ=255)
cATTAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTcc < 1:265448/68‑1 (MQ=255)
aTTAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTcc < 1:222361/67‑1 (MQ=255)
ttAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGCTCCGGGTg < 1:3340312/71‑1 (MQ=255)
aGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGAt < 1:799874/70‑1 (MQ=255)
aGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGAt < 1:2267286/70‑1 (MQ=255)
gcgcGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCg < 1:3425612/71‑1 (MQ=255)
cgcgGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGt < 1:4218521/71‑1 (MQ=255)
aaaGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCg > 1:2084387/1‑71 (MQ=255)
aagaagTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTcc < 1:1764664/54‑1 (MQ=255)
agaagTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGa > 1:2293328/1‑59 (MQ=255)
agaagTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGAt > 1:1122207/1‑60 (MQ=255)
agTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCa < 1:3105040/71‑1 (MQ=255)
agTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCa < 1:540256/71‑1 (MQ=255)
ttGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATc < 1:1712841/63‑1 (MQ=255)
ttGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATc < 1:3327180/63‑1 (MQ=255)
gTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCg > 1:242711/1‑55 (MQ=255)
gTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCg > 1:2432777/1‑55 (MQ=255)
aTTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAgg < 1:680632/71‑1 (MQ=255)
aTTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAg < 1:2949760/70‑1 (MQ=255)
aTTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAg > 1:2838370/1‑70 (MQ=255)
tCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTgg < 1:1832820/53‑1 (MQ=255)
tCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTgg < 1:2858472/53‑1 (MQ=255)
ggCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAg > 1:4270373/1‑69 (MQ=255)
ggCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGa > 1:3832116/1‑70 (MQ=255)
ggCACCACGGTGCCGAGATATTTACGCACCAGCTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGa > 1:4746705/1‑70 (MQ=255)
ggCACCACGGTGCCGAGATATTTACGCACCAGCTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGa > 1:309768/1‑70 (MQ=255)
ggCACCACGGTGCCGAGATATTTACGCACCAGCTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGa > 1:1133739/1‑70 (MQ=255)
caccacGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa < 1:3899393/71‑1 (MQ=255)
accacGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa > 1:1800203/1‑70 (MQ=255)
accacGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaat < 1:507586/71‑1 (MQ=255)
accacGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaat < 1:3562289/71‑1 (MQ=255)
accacGGTGACGATATATTTACGCACCAGTTCCGGGTTAt < 1:2058878/40‑1 (MQ=25)
cacGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaataa > 1:2812267/1‑71 (MQ=255)
cacGGTGCCGAGATATTTACGCACCAGCTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaataa < 1:4216535/71‑1 (MQ=255)
acGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaa > 1:2258823/1‑66 (MQ=255)
acGGTGCCGAGATATTTACGCACCAGCTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaataat < 1:683617/71‑1 (MQ=255)
cGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACa > 1:2100885/1‑61 (MQ=255)
cGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaataat > 1:133924/1‑70 (MQ=255)
cGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGc < 1:2256171/71‑1 (MQ=255)
gagaTATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCt < 1:3535621/71‑1 (MQ=255)
gagaTATTTACGCACCAGTTCCGGGTGATCGGGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCt < 1:2131610/71‑1 (MQ=255)
agaTATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaat < 1:4214459/59‑1 (MQ=255)
agaTATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaat < 1:1649766/59‑1 (MQ=255)
agaTATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaat < 1:3755994/59‑1 (MQ=255)
agaTATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaat < 1:473039/59‑1 (MQ=255)
atatTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTcc > 1:474965/1‑70 (MQ=255)
atTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGc > 1:4752184/1‑70 (MQ=255)
atTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGc > 1:677471/1‑70 (MQ=255)
tACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTg > 1:3205025/1‑61 (MQ=255)
tACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTg > 1:2342086/1‑61 (MQ=255)
tACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAg < 1:3644013/70‑1 (MQ=255)
tACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAg < 1:3675767/70‑1 (MQ=255)
tACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGt > 1:4145124/1‑71 (MQ=255)
tACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGt > 1:272152/1‑71 (MQ=255)
tACGCACCAGTT‑‑GGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTg > 1:2374930/1‑59 (MQ=255)
gCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAGCAGAAAATAATTCCATGc < 1:2416109/59‑1 (MQ=255)
gCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGc < 1:1971759/59‑1 (MQ=255)
cACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa < 1:4636224/47‑1 (MQ=255)
cACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa < 1:4020177/47‑1 (MQ=255)
cACCAGTTCCGGGTGATCGTGAATCGCCTCACCAAAGGAACAGaaaa < 1:3953104/47‑1 (MQ=255)
aCCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAAtt < 1:2715858/51‑1 (MQ=255)
aCCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAAtt < 1:390298/51‑1 (MQ=255)
aCCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAAtt < 1:2274847/51‑1 (MQ=255)
cAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTcgc < 1:1456337/71‑1 (MQ=255)
cAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTcgc > 1:2807026/1‑71 (MQ=255)
cAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTcgc < 1:881238/71‑1 (MQ=255)
aGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTcgcg < 1:2901376/71‑1 (MQ=255)
gTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCGAGTTTTTCGCGa > 1:3634092/1‑71 (MQ=255)
gTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTCGCGa > 1:2313721/1‑71 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa > 1:4030721/1‑41 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa > 1:3070067/1‑41 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa > 1:55424/1‑41 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGaaaa > 1:1318966/1‑41 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAaataa < 1:3482526/44‑1 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTCGCGAt < 1:1354566/71‑1 (MQ=255)
ttCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTCGCGAt < 1:1276540/71‑1 (MQ=255)
|
CCGCATTAAGCGCGGCAAAGAAGTTGTCATTCCCCGGCACCACGGTGCCGAGATATTTACGCACCAGTTCCGGGTGATCGTGGATCGCCTCACCAAAGGAACAGAAAATAATTCCCTGCTCCGCCAGTTTTTCGCGAT > minE/1091100‑1091237
|
| 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
