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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
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%
| 74.1
/ NA
| 20 | 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 (11/9); total (11/9) |
GCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGC > AM260479/1167668‑1167893
|
gCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCt > 2:600876/1‑134 (MQ=255)
aTGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTcccc < 1:1155498/129‑1 (MQ=255)
aTGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTcccc > 2:1155498/1‑129 (MQ=255)
gtgCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCAt > 1:641828/1‑133 (MQ=255)
cGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGaa < 2:641828/133‑1 (MQ=255)
tCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGc < 2:854090/134‑1 (MQ=255)
cGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTc < 2:1086278/134‑1 (MQ=255)
aCAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCa > 2:348096/1‑133 (MQ=255)
gTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAAc > 2:353641/1‑134 (MQ=255)
ttGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTcc > 2:1004549/1‑130 (MQ=255)
ttGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTcc < 1:1004549/130‑1 (MQ=255)
ttGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTT‑CCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGc > 2:7945/1‑134 (MQ=255)
cTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgc > 1:378596/1‑134 (MQ=255)
gttgcgttgcGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTAc > 1:576018/1‑134 (MQ=255)
ttgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTcc < 2:210195/112‑1 (MQ=255)
ttgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTcc > 1:210195/1‑112 (MQ=255)
cgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAg < 1:348096/134‑1 (MQ=255)
gttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGc < 1:527694/134‑1 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc > 1:64347/1‑109 (MQ=255)
gcCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc < 2:64347/109‑1 (MQ=255)
|
GCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGC > AM260479/1167668‑1167893
|
| 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
TTTAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGG > AM260479/1167642‑1167933
|
TTTAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTAC > GWNJ‑0478:712:GW2002102894th:2:2212:8309:55342/1‑150 (MQ=60)
TTAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTAC < GWNJ‑0478:712:GW2002102894th:2:2106:2259:30118/149‑1 (MQ=60)
tttttttttttttttctttttttttttttttcaagcagaagacggcatactagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTNTTACGT < GWNJ‑0478:712:GW2002102894th:2:1108:21326:9406/53‑1 (MQ=60)
gtgtataagagacaGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTC < GWNJ‑0478:712:GW2002102894th:2:2206:20288:14577/135‑1 (MQ=60)
GTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGC < GWNJ‑0478:712:GW2002102894th:2:2216:13130:62471/149‑1 (MQ=60)
CTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATG > GWNJ‑0478:712:GW2002102894th:2:2105:19097:71940/1‑149 (MQ=60)
agttacgatattgtttttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGG < GWNJ‑0478:712:GW2002102894th:2:1208:19566:13089/51‑1 (MQ=60)
agacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACC < GWNJ‑0478:712:GW2002102894th:2:1109:15295:95008/92‑1 (MQ=60)
GCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCG < GWNJ‑0478:712:GW2002102894th:2:2208:11322:3705/149‑1 (MQ=60)
CCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCC > GWNJ‑0478:712:GW2002102894th:2:1207:2410:58416/1‑150 (MQ=60)
GGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACT > GWNJ‑0478:712:GW2002102894th:2:1216:18123:64065/1‑150 (MQ=60)
GGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCtgtctct > GWNJ‑0478:712:GW2002102894th:2:1112:15230:10318/1‑143 (MQ=60)
GTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaataaaaa > GWNJ‑0478:712:GW2002102894th:2:2203:19259:97495/1‑64 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGAC < GWNJ‑0478:712:GW2002102894th:2:1215:12118:21697/115‑1 (MQ=60)
GCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCG < GWNJ‑0478:712:GW2002102894th:2:1205:2007:78793/150‑1 (MQ=60)
CGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGG < GWNJ‑0478:712:GW2002102894th:2:1215:12842:37290/150‑1 (MQ=60)
TTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCtgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1104:11013:2314/1‑140 (MQ=60)
ATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1102:18299:48631/1‑150 (MQ=60)
GTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCtgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:2215:14714:28527/1‑116 (MQ=60)
|
TTTAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGG > AM260479/1167642‑1167933
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
