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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
518,612 |
G→C |
intergenic (+17/‑48) |
h16_A0492 → / → pgam2 |
Phospholipid‑binding protein/phosphoglycerate mutase 2 protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 518,612 | 0 | G | C | 100.0%
| 111.2
/ NA
| 30 | intergenic (+17/‑48) | h16_A0492/pgam2 | Phospholipid‑binding protein/phosphoglycerate mutase 2 protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (14/16); total (14/16) |
GATGGCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGGGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGCGAAACGGCCTGGAAC > AM260479/518488‑518737
|
gATGGCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCcg < 2:1077179/133‑1 (MQ=255)
gCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCgcgg < 2:856131/134‑1 (MQ=255)
gCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCgcgg < 2:370257/134‑1 (MQ=255)
gcgAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGa < 1:542350/134‑1 (MQ=255)
aGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAg > 1:24879/1‑133 (MQ=255)
gggCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATg > 1:6343/1‑134 (MQ=255)
cTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAACCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGGGGCGCCGGCGTCAACGGAAATCCCGAAGGAAACGGCATGTCGCAAAGcc > 2:844902/1‑134 (MQ=255)
gcgcAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGcccc < 1:844902/133‑1 (MQ=255)
gcAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCggg > 2:1021946/1‑134 (MQ=255)
aGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGaa > 2:176269/1‑109 (MQ=255)
aGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGaa < 1:176269/109‑1 (MQ=255)
aGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGcc > 2:437752/1‑134 (MQ=255)
ccAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCa < 1:766916/134‑1 (MQ=255)
aGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCAtt < 1:437752/134‑1 (MQ=255)
cTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGc < 2:24879/134‑1 (MQ=255)
ccGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGc < 1:1021946/134‑1 (MQ=255)
ggCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCt < 2:6343/134‑1 (MQ=255)
ccccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAAt < 1:296808/68‑1 (MQ=255)
ccccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAAt > 2:296808/1‑68 (MQ=255)
ccAATCTGGCGAACTAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGaa > 2:727700/1‑133 (MQ=255)
ccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCgcgg < 1:699093/47‑1 (MQ=255)
ccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCgcgg > 2:699093/1‑47 (MQ=255)
ccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGt < 1:679209/85‑1 (MQ=255)
ccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGt > 2:679209/1‑85 (MQ=255)
ccAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGAt > 2:279875/1‑134 (MQ=255)
tGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGt > 2:632453/1‑79 (MQ=255)
tGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGt < 1:632453/79‑1 (MQ=255)
cGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGc > 2:568582/1‑119 (MQ=255)
cGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGc < 1:568582/119‑1 (MQ=255)
cGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGCGAAACGGCCTGGAAc > 2:374774/1‑134 (MQ=255)
|
GATGGCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGGGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGCGAAACGGCCTGGAAC > AM260479/518488‑518737
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ 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
CGACCGGCTGCCGCTCGATGGCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGGGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGCGAAACGGCCTGGAAC > AM260479/518472‑518737
|
CGACCGGCTGCCGCTCGATGGCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCG < GWNJ‑0478:712:GW2002102894th:2:2110:17540:68263/149‑1 (MQ=60)
ttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGG < GWNJ‑0478:712:GW2002102894th:2:2108:4392:52863/77‑1 (MQ=60)
GCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGG > GWNJ‑0478:712:GW2002102894th:2:1103:13050:60840/1‑149 (MQ=60)
catacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGC < GWNJ‑0478:712:GW2002102894th:2:1201:20508:80653/99‑1 (MQ=60)
GCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGT > GWNJ‑0478:712:GW2002102894th:2:1101:11508:42755/1‑150 (MQ=60)
CGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTC < GWNJ‑0478:712:GW2002102894th:2:1214:19553:47881/150‑1 (MQ=60)
ataagagacaGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAA < GWNJ‑0478:712:GW2002102894th:2:1110:9385:52497/140‑1 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagCGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGC < GWNJ‑0478:712:GW2002102894th:2:2105:14567:63484/109‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagCTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGC < GWNJ‑0478:712:GW2002102894th:2:2106:18402:36979/115‑1 (MQ=60)
GGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTG < GWNJ‑0478:712:GW2002102894th:2:2114:2554:86423/149‑1 (MQ=60)
GCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATAC < GWNJ‑0478:712:GW2002102894th:2:2113:6871:10500/150‑1 (MQ=60)
CAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCC < GWNJ‑0478:712:GW2002102894th:2:1211:1455:30410/150‑1 (MQ=60)
ACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGAT < GWNJ‑0478:712:GW2002102894th:2:2208:20816:100705/150‑1 (MQ=60)
GGAAATAACGTCTGGCCGGCGCCGCGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGCGAAACGGCCTGGAAC < GWNJ‑0478:712:GW2002102894th:2:1216:20601:70391/150‑1 (MQ=60)
|
CGACCGGCTGCCGCTCGATGGCACCTTCACCGGCGCGCAGGTGCGCGAGGCGATCCAGGGCCATGTGCTGGCGCAGGCCAGCCTCACCGGCACTTATACGCTGAACCCCAATCTGGCGAAATAACGTCTGGCCGGCGCCGGGCCAGCCGCGCGGCGCCGGCCTCAAAGGAAATCCCGAAGGAAACGGCATGTCGCAAAGCCCCGGGCCGCATTCGCTGGCCTATACCCACCTGATCGTGATCCGCCACGGCGAAACGGCCTGGAAC > AM260479/518472‑518737
|
| 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: ‑ |
