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 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,207,332 |
A→G |
56.5% |
intergenic (‑22/+408) |
tldD ← / ← yhdP |
predicted peptidase/conserved membrane protein, predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,207,332 | 0 | A | G | 56.5%
| 18.4
/ 55.5
| 46 | intergenic (‑22/+408) | tldD/yhdP | predicted peptidase/conserved membrane protein, predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (9/11); new base G (16/10); total (25/21) |
| Fisher's exact test for biased strand distribution p-value = 3.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGTTATGTT > minE/2207266‑2207400
|
gCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTg > 1:1096109/1‑70 (MQ=255)
tCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGt > 1:838396/1‑69 (MQ=255)
tCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGt > 1:2900436/1‑69 (MQ=255)
gccgcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTagag < 1:603944/71‑1 (MQ=255)
cgcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGa > 1:992505/1‑71 (MQ=255)
gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGt > 1:62089/1‑64 (MQ=255)
gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGt > 1:2301444/1‑64 (MQ=255)
gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGt > 1:834448/1‑64 (MQ=255)
gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGt > 1:902262/1‑64 (MQ=255)
gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGAt > 1:1253506/1‑71 (MQ=255)
gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGAt < 1:195245/71‑1 (MQ=255)
cTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGAtt > 1:2186280/1‑71 (MQ=255)
cTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGAtt > 1:3043940/1‑71 (MQ=255)
tAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGAttt > 1:426133/1‑71 (MQ=255)
gCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGAttttt < 1:2617800/71‑1 (MQ=255)
ttGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACg < 1:3731026/71‑1 (MQ=255)
cACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTg < 1:670566/70‑1 (MQ=255)
aCTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGc < 1:1920379/70‑1 (MQ=255)
cTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCtt < 1:1592816/68‑2 (MQ=255)
ttACGAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTAc > 1:1887204/1‑62 (MQ=255)
ttACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCg > 1:2124096/1‑70 (MQ=255)
ttACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCg > 1:937814/1‑70 (MQ=255)
ttACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTAc > 1:962381/1‑62 (MQ=255)
aCCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGAttttt < 1:3073051/57‑1 (MQ=255)
aCCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTa > 1:723495/1‑59 (MQ=255)
aCCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGAt > 1:1550190/1‑71 (MQ=255)
cAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTa < 1:3117633/45‑1 (MQ=255)
cAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGATgc > 1:34873/1‑71 (MQ=255)
ggTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGATgcgg > 1:2851856/1‑71 (MQ=255)
ggTTAAGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGATgcgg > 1:3117732/1‑71 (MQ=255)
ttAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACg < 1:2960477/55‑1 (MQ=255)
tAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTa > 1:3717032/1‑52 (MQ=255)
aaGACTCATCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGt < 1:268600/70‑1 (MQ=255)
aGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTTCCGGATGCGGCGTg < 1:43152/70‑1 (MQ=255)
aTCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTa < 1:750223/44‑1 (MQ=255)
aTCGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCgg < 1:1946792/54‑1 (MQ=255)
aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGAtttttt > 1:3092418/1‑43 (MQ=255)
cGTTTTTGCTACTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTa > 1:190548/1‑71 (MQ=255)
tttGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATcc < 1:3377140/70‑1 (MQ=255)
tttGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATcc < 1:2599968/70‑1 (MQ=255)
tttGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATcc < 1:3622513/70‑1 (MQ=255)
ttGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAAc > 1:2906654/1‑60 (MQ=255)
tGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAg < 1:3568591/70‑1 (MQ=255)
cTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGcc < 1:591507/70‑1 (MQ=255)
cTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGcc < 1:2240213/70‑1 (MQ=255)
cTCGTTAGTTGCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTAc < 1:900276/70‑1 (MQ=255)
gttagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACgg < 1:1594912/69‑1 (MQ=255)
gttagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACgg < 1:3456026/69‑1 (MQ=255)
gttagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGtt < 1:807066/71‑1 (MQ=255)
gttagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGt < 1:2293926/70‑1 (MQ=255)
gttagttaCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGt < 1:54160/70‑1 (MQ=255)
ttagttaCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGtt < 1:1952056/70‑1 (MQ=255)
tagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGa > 1:1012940/1‑47 (MQ=255)
tagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGa > 1:1539770/1‑47 (MQ=255)
tagttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGa > 1:649432/1‑47 (MQ=255)
gttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGt < 1:2165048/43‑1 (MQ=255)
gttgCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGt < 1:2632384/43‑1 (MQ=255)
gttaCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGTTATGt < 1:3339483/71‑1 (MQ=255)
ttaCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACTGTTATGtt < 1:2651809/71‑1 (MQ=255)
aCTGCAGTAGAGGATTTTTTACGGCTGCCGGATgcg < 1:1373708/36‑1 (MQ=255)
|
GCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGTTATGTT > minE/2207266‑2207400
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
