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 |
|
A7 F1 I2 R1
|
94 |
59.5 |
3027142 |
91.9% |
2781943 |
108.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,280,946 |
G→A |
pseudogene (246/375 nt) |
agaW → |
pseudogene, N‑acetylgalactosamine‑specific enzyme IIC component of PTS,enzyme, Central intermediary metabolism: Amino sugars, PTS system N‑acetylgalactosameine‑specific IIC component 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,280,946 | 0 | G | A | 100.0%
| 146.2
/ NA
| 42 | pseudogene (246/375 nt) | agaW | pseudogene, N‑acetylgalactosamine‑specific enzyme IIC component of PTS,enzyme, Central intermediary metabolism: Amino sugars, PTS system N‑acetylgalactosameine‑specific IIC component 2 |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (24/18); total (24/18) |
GGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGACCT > NC_000913/3280830‑3281077
|
ggCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGt > 1:952287/1‑121 (MQ=255)
ggCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGt < 2:952287/121‑1 (MQ=255)
tGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAAcc > 1:1497907/1‑139 (MQ=255)
ttttAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATg > 1:118485/1‑132 (MQ=255)
ttttAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATg < 2:118485/132‑1 (MQ=255)
ggcggTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCg > 1:929970/1‑139 (MQ=255)
cggTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGcc > 1:1343065/1‑139 (MQ=255)
cggTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGcc < 2:929970/139‑1 (MQ=255)
ggAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGttt < 2:508033/85‑1 (MQ=255)
ggAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGttt > 1:508033/1‑85 (MQ=255)
gtgtGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCg < 2:1346709/139‑1 (MQ=255)
aTGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTAc > 1:203773/1‑139 (MQ=255)
gggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGa < 2:920556/139‑1 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGtt > 1:988068/1‑67 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGcc < 2:1270752/71‑1 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGcc > 1:1270752/1‑71 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATtactac > 2:232463/1‑79 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATtactac < 1:232463/79‑1 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGAt > 2:721155/1‑139 (MQ=255)
ggCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGACTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGAt > 1:5134/1‑139 (MQ=255)
ggCTCGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCTCAGCGtt < 2:988068/67‑1 (MQ=255)
gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGa > 2:702823/1‑139 (MQ=255)
gCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGa > 1:42668/1‑139 (MQ=255)
gCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCg > 1:387966/1‑119 (MQ=255)
gCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCg < 2:387966/119‑1 (MQ=255)
ggcgCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGTAGTAGGTGTCGCCGTACCTTTCGc < 1:696280/107‑1 (MQ=255)
ggcgCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGTAGTAGGTGTCGCCGTACCTTTCGc > 2:696280/1‑107 (MQ=255)
cgcACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGaaa < 1:1223022/70‑1 (MQ=255)
cgcACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGaaa > 2:1223022/1‑70 (MQ=255)
tGATTATCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGt > 1:395689/1‑139 (MQ=255)
tCGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGtc < 2:5134/139‑1 (MQ=255)
cGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTa < 2:1417508/104‑1 (MQ=255)
cGGTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTa > 1:1417508/1‑104 (MQ=255)
gTACTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCg > 2:932994/1‑139 (MQ=255)
aCTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGa > 2:662757/1‑47 (MQ=255)
aCTATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGa < 1:662757/47‑1 (MQ=255)
tATCGTCGGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGc > 1:684291/1‑139 (MQ=255)
tcgtcgGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATgggg > 2:444805/1‑92 (MQ=255)
tcgtcgGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATgggg < 1:444805/92‑1 (MQ=255)
tcgGCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGACCt < 2:395689/139‑1 (MQ=255)
ggCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTg > 2:425894/1‑131 (MQ=255)
ggCACAGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTg < 1:425894/131‑1 (MQ=255)
|
GGCGATCTGCATACCGGAATTTTAACCGGCGGTACGCTGGAACTGGTGTGGATGGGGCTGGCCCCGCTGGCGGGCGCACAGCCGCCTAACGTGATTATCGGTACTATCGTCGGCACGGCGTTTGCCATTACTACTGGCGTGAAACCCGATGTCGCAGTAGGTGTCGCCGTACCTTTCGCTGTCGCAGTACAGATGGGGATTACCTTCCTGTTCTCGGTGATGTCCGGCGTGATGTCTCGCTGCGACCT > NC_000913/3280830‑3281077
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
