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 |
|
A1 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
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%
| 81.9
/ NA
| 22 | 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 (14/8); total (14/8) |
ATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGT > AM260479/1167677‑1167920
|
aTGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTcccc > 1:872336/1‑129 (MQ=255)
aTGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTcccc < 2:872336/129‑1 (MQ=255)
aTGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGcc > 2:675899/1‑133 (MQ=255)
tGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAg < 1:218731/127‑1 (MQ=255)
tGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAg > 2:218731/1‑127 (MQ=255)
tgtgtTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAAc < 1:675899/134‑1 (MQ=255)
ttCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAg > 1:848937/1‑104 (MQ=255)
ttCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAg < 2:848937/104‑1 (MQ=255)
ttCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCg > 1:676955/1‑134 (MQ=255)
ttGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGAGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACg > 2:944323/1‑134 (MQ=255)
gTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCACGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTAc > 1:727122/1‑134 (MQ=255)
aTGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc < 2:676955/132‑1 (MQ=255)
ttgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACt > 1:595837/1‑134 (MQ=255)
tgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTgcgc < 1:746379/44‑1 (MQ=255)
tgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTgcgc > 2:746379/1‑44 (MQ=255)
tgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc < 1:259854/128‑1 (MQ=255)
tgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGgccgcc > 2:259854/1‑128 (MQ=255)
tgcgttgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACt > 1:948597/1‑133 (MQ=255)
tgcgGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCg > 1:44309/1‑134 (MQ=255)
ccACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGttt > 2:13571/1‑134 (MQ=255)
cGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCgg > 2:540786/1‑134 (MQ=255)
ttACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGt < 2:795057/133‑1 (MQ=255)
|
ATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGT > AM260479/1167677‑1167920
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
BRESEQ :: bam2aln output
TAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGGCA > AM260479/1167644‑1167935
|
TAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACG < GWNJ‑0478:712:GW2002102894th:2:1214:5709:78210/149‑1 (MQ=60)
ttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCC < GWNJ‑0478:712:GW2002102894th:2:1108:5323:47860/79‑1 (MQ=60)
GTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCG > GWNJ‑0478:712:GW2002102894th:2:2206:13656:32352/1‑149 (MQ=60)
tttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAAC < GWNJ‑0478:712:GW2002102894th:2:2114:6373:18973/75‑1 (MQ=60)
GCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGA < GWNJ‑0478:712:GW2002102894th:2:1115:6849:74862/150‑1 (MQ=60)
CTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGActgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2205:7569:88326/1‑134 (MQ=60)
CTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGT > GWNJ‑0478:712:GW2002102894th:2:2110:16477:23720/1‑150 (MQ=60)
GTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGC < GWNJ‑0478:712:GW2002102894th:2:2110:4747:17322/150‑1 (MQ=60)
GTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCACGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACC > GWNJ‑0478:712:GW2002102894th:2:2115:13672:14596/1‑150 (MQ=60)
GGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTG > GWNJ‑0478:712:GW2002102894th:2:2107:17812:16239/1‑150 (MQ=60)
GTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTG > GWNJ‑0478:712:GW2002102894th:2:2210:20943:96158/1‑149 (MQ=60)
CCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGG > GWNJ‑0478:712:GW2002102894th:2:1102:4034:6377/1‑150 (MQ=60)
AATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGAC < GWNJ‑0478:712:GW2002102894th:2:1201:7941:15579/148‑1 (MQ=60)
CGCCCACGATGTTTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGctgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:1212:16107:47104/1‑116 (MQ=60)
TTTACGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGGCA < GWNJ‑0478:712:GW2002102894th:2:2103:20068:27427/149‑1 (MQ=60)
|
TAGGAACCGATTTGTGACGTTGATGCCTGTCAAATGCTGCTTCGCGGATTTGTGCGTCGATTGTCCGTTCTGCTGAACAGTGTGTTCTGTGCCGTTGGGTTTACCCCTAATGTTGCGTTGCGGTACAGTCGCGCCCACGATGTTTTATGTGTTGCGCTCCCCGGCCGAAAACCGCGCTTGCCATGAAGGCAAGTCCGTCGGGAAGTGCAAAAACCTCGTATTCCAACGCTACCCGGCCGCCGTACTGAGCCGGGACCGTTCGCGGTTTCGGCCAGGTGCCGCAGCGCCGGCA > AM260479/1167644‑1167935
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
