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 |
3,602,688 |
(G)6→5 |
intergenic (‑85/+41) |
h16_A3328 ← / ← h16_A3329 |
conserved hypothetical membrane protein/unassigned peptidase, M61 subfamily (glycyl aminopeptidase) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,602,683 | 0 | G | . | 100.0%
| 85.6
/ NA
| 20 | intergenic (‑80/+46) | h16_A3328/h16_A3329 | conserved hypothetical membrane protein/unassigned peptidase, M61 subfamily (glycyl aminopeptidase) |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (11/9); total (11/9) |
GTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGC > AM260479/3602574‑3602809
|
gTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGc > 1:241133/1‑122 (MQ=255)
gTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGc < 2:241133/122‑1 (MQ=255)
gcgcCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATg < 1:355198/101‑1 (MQ=255)
gcgcCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATg > 2:355198/1‑101 (MQ=255)
cgcCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAg < 2:791302/134‑1 (MQ=255)
aGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCagcgcg < 2:678590/134‑1 (MQ=255)
ccccGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGcgcc > 1:297227/1‑134 (MQ=255)
ccGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATg > 2:599620/1‑69 (MQ=255)
ccGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATg < 1:599620/69‑1 (MQ=255)
cgaaTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCtctc > 1:243726/4‑134 (MQ=255)
aTACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAGAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAg > 1:275275/1‑134 (MQ=255)
ggATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTgc > 1:727523/1‑134 (MQ=255)
tCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGcgcc < 2:727523/134‑1 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCg > 1:792877/1‑107 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCg < 2:42455/107‑1 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCg > 1:42455/1‑107 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCg < 2:792877/107‑1 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCAGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCg < 2:363726/107‑1 (MQ=255)
gcgTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCAGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCg > 1:363726/1‑107 (MQ=255)
tgcaGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGc > 2:780922/1‑132 (MQ=255)
|
GTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGC > AM260479/3602574‑3602809
|
| 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
GGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAG > AM260479/3602559‑3602824
|
atacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGG < GWNJ‑0478:712:GW2002102894th:2:2107:2071:40476/99‑1 (MQ=60)
agatgtgtataagagacagAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGG < GWNJ‑0478:712:GW2002102894th:2:1206:2474:57218/131‑1 (MQ=60)
GGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGG > GWNJ‑0478:712:GW2002102894th:2:1114:8816:98047/1‑150 (MQ=60)
agcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCG < GWNJ‑0478:712:GW2002102894th:2:1214:7441:99349/87‑1 (MQ=60)
GTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1202:17279:78588/1‑150 (MQ=60)
CCGGTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCG > GWNJ‑0478:712:GW2002102894th:2:1116:18012:12818/1‑150 (MQ=60)
GTAGATGTAGTGCGAATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAGAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGC > GWNJ‑0478:712:GW2002102894th:2:1203:20830:28303/1‑150 (MQ=60)
gggctcggagatgtgtataagagacaGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAAC < GWNJ‑0478:712:GW2002102894th:2:1214:13890:88903/124‑1 (MQ=60)
TACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCG > GWNJ‑0478:712:GW2002102894th:2:2115:6468:16920/1‑150 (MQ=60)
GTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:1105:16749:93193/1‑137 (MQ=60)
GTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:2203:17471:7519/1‑137 (MQ=60)
GTGCGGGGATCGTGCGCGTATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCAGGTGTGGCAGCGGCAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGGCCGCTCTCGAGCTTCACCTTGAACctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:1208:7980:10170/1‑137 (MQ=60)
ATTGCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGG > GWNJ‑0478:712:GW2002102894th:2:1116:5073:53550/1‑150 (MQ=60)
GCATGCAGC‑GGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACctgtctcttatacacatctccgagcccacgagacg > GWNJ‑0478:712:GW2002102894th:2:2209:13666:12362/1‑115 (MQ=60)
|
GGGCAGGTCGCTGAAGTGCAGCGCGATCAGCGTGGCGCCGATCACCCCGGTGGCCGAGCGCAGCCCCCGGTAGATGTAGTGCG‑ATACAGGAAGGTGCGGGGATCGTGCGCGTATTGCATGCAGCGGGGGGCGATGGCGTGCGGTGGCGGGTGTGGCAGCGGAAAACTAGTTCACTGGCCCAGCCAGCGCGAGCGCGCCGCGTGCCGTCCGCTCTCGAGCTTCACCTTGAACTGCGCCGCCGGCTCGCGTGCCAGCGTCACCGGCAG > AM260479/3602559‑3602824
|
| 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: ‑ |
