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 |
|
A0 F0 I1 R1
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,167,791 |
T→C |
intergenic (+238/‑365) |
h16_A1070 → / → cyoA1 |
acyl dehydratase/bo3‑type quinol oxidase, subunit II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,167,791 | 0 | T | C | 100.0%
| 135.3
/ NA
| 35 | intergenic (+238/‑365) | h16_A1070/cyoA1 | acyl dehydratase/bo3‑type quinol oxidase, subunit II |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (17/18); total (17/18) |
TGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGT > AM260479/1167678‑1167909
|
tgctgcTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGa < 1:838977/134‑1 (MQ=255)
ctTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAAc < 2:896255/133‑1 (MQ=255)
cgcgGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACcg < 1:554346/132‑1 (MQ=255)
cGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAg < 1:433846/134‑1 (MQ=255)
gTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCg > 2:467344/1‑134 (MQ=255)
tgctgAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTgcgc < 1:874289/87‑1 (MQ=255)
tgctgAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTgcgc > 2:874289/1‑87 (MQ=255)
gAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTg > 2:666286/1‑133 (MQ=255)
cAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCaa > 1:790471/1‑133 (MQ=255)
cTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTa > 1:384177/1‑134 (MQ=255)
ccGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTgcgc < 2:747496/66‑1 (MQ=255)
ccGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTgcgc > 1:747496/1‑66 (MQ=255)
ccGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCt < 2:196689/87‑1 (MQ=255)
ccGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCt > 1:196689/1‑87 (MQ=255)
ttGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACgtgt < 2:390952/58‑1 (MQ=255)
ttGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACgtgt > 1:390952/1‑58 (MQ=255)
gggTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGc > 2:1047197/1‑133 (MQ=255)
ggTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCt < 2:384177/133‑1 (MQ=255)
gTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTAc < 2:790471/134‑1 (MQ=255)
cTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgc < 1:1047197/134‑1 (MQ=255)
tGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTc > 2:1101886/1‑89 (MQ=255)
tGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTc < 1:1101886/89‑1 (MQ=255)
ttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc > 2:555236/1‑124 (MQ=255)
ttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc < 1:555236/124‑1 (MQ=255)
tgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTg > 2:282033/1‑62 (MQ=255)
tgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTg < 1:282033/62‑1 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCa < 2:1124843/77‑1 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCa > 1:1124843/1‑77 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTAc < 2:536342/100‑1 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTAc > 1:536342/1‑100 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGt > 1:100470/1‑134 (MQ=255)
cGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACcg < 2:470557/37‑1 (MQ=255)
cGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACcg > 1:470557/1‑37 (MQ=255)
ttttACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTAc > 1:818467/1‑90 (MQ=255)
ttttACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTAc < 2:818467/90‑1 (MQ=255)
|
TGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGT > AM260479/1167678‑1167909
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGGCA > AM260479/1167669‑1167935
|
cgtgggctcggagatgtgtataagagacagGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAAC < GWNJ‑0478:712:GW2002102894th:2:2203:16579:26203/117‑1 (MQ=60)
ATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCA < GWNJ‑0478:712:GW2002102894th:2:2116:21294:16292/150‑1 (MQ=60)
TCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGG < GWNJ‑0478:712:GW2002102894th:2:1214:19106:96032/148‑1 (MQ=60)
agacggcatacgagtttagcgagtgtctcgtgggctcggagatgtgtataagagacagCCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTC < GWNJ‑0478:712:GW2002102894th:2:1116:15959:97265/92‑1 (MQ=60)
GCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGA < GWNJ‑0478:712:GW2002102894th:2:1209:2153:97570/150‑1 (MQ=60)
GTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAA > GWNJ‑0478:712:GW2002102894th:2:2112:12123:74281/1‑149 (MQ=60)
cgtgggctcggagatgtgtataagagacagTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAAC < GWNJ‑0478:712:GW2002102894th:2:2215:6091:5073/119‑1 (MQ=60)
GCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTAT > GWNJ‑0478:712:GW2002102894th:2:1206:13280:22949/1‑150 (MQ=60)
ACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgcc > GWNJ‑0478:712:GW2002102894th:2:2110:12248:44759/1‑97 (MQ=60)
ACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:1113:5737:53598/1‑117 (MQ=60)
GTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctg > GWNJ‑0478:712:GW2002102894th:2:1206:19069:61897/1‑88 (MQ=60)
nnnnnGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGC < GWNJ‑0478:712:GW2002102894th:2:2201:16723:101259/144‑1 (MQ=60)
CCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGA < GWNJ‑0478:712:GW2002102894th:2:2212:18123:28944/150‑1 (MQ=60)
gtgtctcgtgggctcgagatgtgtataagagacagGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGAC < GWNJ‑0478:712:GW2002102894th:2:1213:16737:22123/115‑1 (MQ=60)
AATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGAC < GWNJ‑0478:712:GW2002102894th:2:1214:12085:100470/148‑1 (MQ=60)
TTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCctgtctcttatacacatctccgagcccacgagacactcgcta > GWNJ‑0478:712:GW2002102894th:2:2216:17264:14088/1‑107 (MQ=60)
TTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGctgtctcttatacacatctc > GWNJ‑0478:712:GW2002102894th:2:1214:5867:10165/1‑130 (MQ=60)
TTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTT > GWNJ‑0478:712:GW2002102894th:2:1106:2486:23233/1‑150 (MQ=60)
GTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaacaaa > GWNJ‑0478:712:GW2002102894th:2:1210:19325:88273/1‑68 (MQ=60)
GTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2114:12770:13085/1‑120 (MQ=60)
TTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGGCA < GWNJ‑0478:712:GW2002102894th:2:1210:4751:71973/149‑1 (MQ=60)
|
CCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGGCA > AM260479/1167669‑1167935
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
