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
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
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%
| 87.4
/ NA
| 20 | 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 . (12/8); total (12/8) |
CAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTG > AM260480/963785‑964033
|
cAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGaaag < 2:637940/133‑2 (MQ=255)
cAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGaaag < 2:256302/133‑2 (MQ=255)
ctgGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAAcgcg < 2:114777/134‑1 (MQ=255)
gggCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGagcag > 2:5152/1‑134 (MQ=255)
cTGTGGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGcgcc < 1:387201/134‑1 (MQ=255)
gTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCcgcgcg > 2:659381/1‑134 (MQ=255)
tGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAgcgc < 1:456376/127‑1 (MQ=255)
tGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAgcgc > 2:456376/1‑127 (MQ=255)
cAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTgg > 1:641825/1‑134 (MQ=255)
aaTCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTc > 2:80835/1‑93 (MQ=255)
aaTCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTc < 1:80835/93‑1 (MQ=255)
gTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAg > 2:777007/1‑134 (MQ=255)
cGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTc > 1:77987/1‑84 (MQ=255)
cGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTc < 2:77987/84‑1 (MQ=255)
ccAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCcgcgc > 2:344239/1‑80 (MQ=255)
ccAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCcgcgc < 1:344239/80‑1 (MQ=255)
aCGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAAt > 2:1021662/1‑134 (MQ=255)
ggACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGagc < 2:55146/65‑1 (MQ=255)
ggACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGagc > 1:55146/1‑65 (MQ=255)
ggACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGACGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATgg > 1:169018/1‑134 (MQ=255)
cGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGggct < 2:641825/134‑1 (MQ=255)
gccgcATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGgctggctg > 2:104850/1‑134 (MQ=255)
|
CAGCGAGATCCAGCACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTG > AM260480/963785‑964033
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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
ACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGCTGCCCGAAGCCTGCG > AM260480/963799‑964058
|
gggctcggagatgtgtataagagacaGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGC < GWNJ‑0478:712:GW2002102894th:2:1107:17151:53800/124‑1 (MQ=60)
GGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGC > GWNJ‑0478:712:GW2002102894th:2:2109:2839:38384/1‑150 (MQ=60)
GCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCC < GWNJ‑0478:712:GW2002102894th:2:1212:20997:61962/150‑1 (MQ=60)
CCTGTGGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCG < GWNJ‑0478:712:GW2002102894th:2:1209:4930:68607/150‑1 (MQ=60)
agctccgtctcgtgggctcggagatgtgtataagagacagGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCC < GWNJ‑0478:712:GW2002102894th:2:1206:2302:2598/110‑1 (MQ=60)
GGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCctgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:1107:11273:35721/1‑114 (MQ=60)
CAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGctcgaagccgtagccgcgttcgacatagc < GWNJ‑0478:712:GW2002102894th:2:2103:18116:64076/150‑30 (MQ=60)
CATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccg > GWNJ‑0478:712:GW2002102894th:2:1102:3649:81120/1‑95 (MQ=60)
CATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGG‑AAAGCGTGCGGCGCTATGACGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGG > GWNJ‑0478:712:GW2002102894th:2:1110:10229:98058/1‑150 (MQ=60)
gtataagagacaGCTGCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGC < GWNJ‑0478:712:GW2002102894th:2:1204:12576:61280/137‑1 (MQ=60)
GCAGG‑AAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaacagaacacagttataagaaa > GWNJ‑0478:712:GW2002102894th:2:2204:20737:74366/1‑50 (MQ=60)
|
ACGAACTGCTGGCCAAGCAGGTGCTGGGCCTGTAGTGGCTCCAATCGTGCCCGCAACCCAGGACAAGGAACTGAACACATGAGCGATCCAACGGACGATCGCCGCATGCTGCAGGAAAAGCGTGCGGCGCTATGTCGAACGCGGCTACGGCTTCGAGCAGCGCCGCGCGGCGCTGGCCGAGCCCGATGGCTTCTCGCGCAAGCACTGGCAGGCGTTTGCCGAAATGGGCTGGCTGGCCGTGGGGCTGCCCGAAGCCTGCG > AM260480/963799‑964058
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
