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 |
AM260480 |
963,917 |
Δ1 bp |
intergenic (+84/‑3) |
h16_B0849 → / → h16_B0850 |
Acyl‑CoA dehydrogenase/Acyl‑CoA dehydrogenase, short‑chain specific |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 963,914 | 0 | A | . | 100.0%
| 110.3
/ NA
| 25 | intergenic (+81/‑6) | h16_B0849/h16_B0850 | Acyl‑CoA dehydrogenase/Acyl‑CoA dehydrogenase, short‑chain specific |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (15/10); total (15/10) |
CTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCT > AM260480/963807‑964028
|
ctgGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAAcgcg > 1:459539/1‑134 (MQ=255)
ctgGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAAcgcg > 1:212341/1‑134 (MQ=255)
ctgGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAAcgc < 2:212341/133‑1 (MQ=255)
ccAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTa > 2:1100819/1‑134 (MQ=255)
aGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCtt < 1:21903/134‑1 (MQ=255)
aGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCtt < 1:1100819/134‑1 (MQ=255)
tGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGcgccg > 1:123666/1‑134 (MQ=255)
tAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGcgccg < 2:123666/132‑1 (MQ=255)
cAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTgg > 2:839686/1‑134 (MQ=255)
cGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGt < 1:446596/89‑1 (MQ=255)
cGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGt > 2:446596/1‑89 (MQ=255)
gTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTgctcg > 2:176151/1‑128 (MQ=255)
gTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAg > 1:271095/1‑134 (MQ=255)
cGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGa > 1:433225/1‑134 (MQ=255)
aCTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCa < 1:296574/134‑1 (MQ=255)
cTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCAc > 1:553044/1‑134 (MQ=255)
cTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCAc > 2:27527/1‑134 (MQ=255)
gCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTc > 2:962600/1‑53 (MQ=255)
gCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTc < 1:962600/53‑1 (MQ=255)
gATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCCTTTGc > 2:336060/1‑134 (MQ=255)
ccAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGcgcc > 2:499729/1‑76 (MQ=255)
ccAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGcgcc < 1:499729/76‑1 (MQ=255)
aCGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAAt > 1:431814/1‑134 (MQ=255)
ggACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATgg < 2:271095/134‑1 (MQ=255)
cGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGggct < 1:839686/134‑1 (MQ=255)
|
CTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCT > AM260480/963807‑964028
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
GGCGGCTCCAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGCTGCCCGAAGCCTGCGG > AM260480/963777‑964059
|
GGCGGCTCCAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCG < GWNJ‑0478:712:GW2002102894th:2:1214:17231:24452/150‑1 (MQ=60)
ATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGG > GWNJ‑0478:712:GW2002102894th:2:1112:10944:36282/1‑150 (MQ=60)
ATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGG > GWNJ‑0478:712:GW2002102894th:2:1210:14802:31427/1‑150 (MQ=60)
cgtgggctcggagatgtgtataagagacagTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGG < GWNJ‑0478:712:GW2002102894th:2:1211:13002:64140/119‑1 (MQ=60)
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGC < GWNJ‑0478:712:GW2002102894th:2:2206:14229:58106/85‑1 (MQ=60)
AGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGC > GWNJ‑0478:712:GW2002102894th:2:1108:9326:58390/1‑150 (MQ=60)
CAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGC < GWNJ‑0478:712:GW2002102894th:2:2214:4970:99390/150‑1 (MQ=60)
CAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGC < GWNJ‑0478:712:GW2002102894th:2:1103:21188:42686/150‑1 (MQ=60)
GGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcg > GWNJ‑0478:712:GW2002102894th:2:1211:11111:7903/1‑102 (MQ=60)
attagcgagtgtctcgtgggctcggagatgtgtataagagacagGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCG < GWNJ‑0478:712:GW2002102894th:2:1212:5016:34048/106‑1 (MQ=60)
GTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGC > GWNJ‑0478:712:GW2002102894th:2:1116:1783:33195/1‑150 (MQ=60)
GGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGAT > GWNJ‑0478:712:GW2002102894th:2:1209:12783:94010/1‑150 (MQ=60)
CCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGctcgaagccgtagccgcgttcgacat < GWNJ‑0478:712:GW2002102894th:2:1110:18744:45795/150‑27 (MQ=60)
ACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACT > GWNJ‑0478:712:GW2002102894th:2:1214:11891:89922/1‑150 (MQ=60)
AACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGC < GWNJ‑0478:712:GW2002102894th:2:1201:1506:90756/150‑1 (MQ=60)
ACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaacaagagaaaggt > GWNJ‑0478:712:GW2002102894th:2:2113:5869:71823/1‑61 (MQ=60)
CACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATG > GWNJ‑0478:712:GW2002102894th:2:1209:18662:86983/1‑150 (MQ=60)
ACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGC < GWNJ‑0478:712:GW2002102894th:2:2116:2788:20080/150‑1 (MQ=60)
GCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGCTGCCCGAAGCCTGCGG > GWNJ‑0478:712:GW2002102894th:2:1108:8716:88345/1‑150 (MQ=60)
AGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGctgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1201:12582:70653/1‑126 (MQ=60)
|
GGCGGCTCCAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGCTGCCCGAAGCCTGCGG > AM260480/963777‑964059
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
