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 |
637,111 |
+G |
intergenic (‑164/+218) |
adk ← / ← kdsB |
adenylate kinase/3‑Deoxy‑manno‑octulosonate cytidylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 637,107 | 1 | . | G | 100.0%
| 118.7
/ NA
| 32 | intergenic (‑160/+222) | adk/kdsB | adenylate kinase/3‑Deoxy‑manno‑octulosonate cytidylyltransferase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (16/16); total (16/16) |
GGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAG > AM260479/636978‑637214
|
ggCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑gggg > 1:1011239/1‑134 (MQ=255)
ggCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑gggg > 1:872812/1‑134 (MQ=255)
ggTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACAcc < 2:858691/134‑1 (MQ=255)
cGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACg > 2:571507/1‑131 (MQ=255)
cGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACg < 1:571507/131‑1 (MQ=255)
cGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGc > 2:828692/1‑134 (MQ=255)
aCTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCacac > 1:193367/1‑121 (MQ=255)
aCTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCacac < 2:193367/121‑1 (MQ=255)
tACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCacac > 2:327942/1‑106 (MQ=255)
tACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCacac < 1:327942/106‑1 (MQ=255)
gCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑ggggg < 1:160408/85‑2 (MQ=255)
gCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑ggggg > 2:160408/1‑84 (MQ=255)
cTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTgg > 2:982017/1‑134 (MQ=255)
tGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCt > 2:146958/1‑111 (MQ=255)
tGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCt < 1:146958/111‑1 (MQ=255)
tGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGc > 1:982840/1‑134 (MQ=255)
tCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑gggggat > 1:931412/1‑58 (MQ=255)
tCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑gggggat < 2:931412/61‑4 (MQ=255)
cgGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATgccggc < 2:1011239/134‑1 (MQ=255)
aGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGctc < 1:982017/132‑1 (MQ=255)
aGGCGTACCCACGCATACGGCCGGCGGCGGCCGCCAGGGGGATGGCGGCGCGGCACACCGGa > 2:727211/1‑62 (MQ=255)
aGGCGTACCCACGCATACGGCCGGCGGCGGCCGCCAGGGGGATGGCGGCGCGGCACACCGGa < 1:727211/62‑1 (MQ=38)
gTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATc < 1:828692/134‑1 (MQ=255)
cACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCacac > 2:918752/1‑49 (MQ=38)
cACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCacac < 1:918752/49‑1 (MQ=38)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATggcgg > 1:145388/1‑37 (MQ=37)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATggcgg < 2:145388/37‑1 (MQ=37)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATggc > 2:830249/1‑35 (MQ=25)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATggc < 1:830249/35‑1 (MQ=25)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACg < 1:982337/53‑1 (MQ=38)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACg > 2:982337/1‑53 (MQ=38)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTa < 2:473038/60‑1 (MQ=255)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTa > 1:473038/1‑60 (MQ=39)
cGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAg > 2:32071/1‑133 (MQ=255)
cggcggcTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCt > 1:869597/1‑69 (MQ=255)
cggcggcTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCt < 2:869597/69‑1 (MQ=255)
gcggcTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGctc < 2:7408/106‑1 (MQ=255)
gcggcTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGctc > 1:7408/1‑106 (MQ=255)
|
GGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAG > AM260479/636978‑637214
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAATCGGCCC > AM260479/636963‑637246
|
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGG > GWNJ‑0478:712:GW2002102894th:2:2208:20517:40341/1‑150 (MQ=60)
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGG > GWNJ‑0478:712:GW2002102894th:2:2201:17380:21931/1‑150 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCAC < GWNJ‑0478:712:GW2002102894th:2:1111:2134:66436/115‑1 (MQ=60)
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCG < GWNJ‑0478:712:GW2002102894th:2:1116:2950:5804/102‑1 (MQ=60)
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACCCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACC < GWNJ‑0478:712:GW2002102894th:2:2105:6905:82589/101‑1 (MQ=60)
tctattaattttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGG < GWNJ‑0478:712:GW2002102894th:2:2114:20680:15949/65‑1 (MQ=60)
GAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTAT > GWNJ‑0478:712:GW2002102894th:2:1113:3784:43763/1‑150 (MQ=60)
ttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATC < GWNJ‑0478:712:GW2002102894th:2:2204:19858:8839/79‑1 (MQ=60)
gtataagagacagACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATC < GWNJ‑0478:712:GW2002102894th:2:1202:13550:81833/136‑1 (MQ=60)
agacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCCGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTA < GWNJ‑0478:712:GW2002102894th:2:2111:14881:6059/92‑1 (MQ=60)
ACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATC < GWNJ‑0478:712:GW2002102894th:2:1216:12803:85086/150‑1 (MQ=60)
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATC < GWNJ‑0478:712:GW2002102894th:2:2206:3430:76971/83‑1 (MQ=60)
aagagaCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGA < GWNJ‑0478:712:GW2002102894th:2:1109:16759:95128/144‑1 (MQ=60)
GACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCC > GWNJ‑0478:712:GW2002102894th:2:2206:21282:79361/1‑150 (MQ=60)
tttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagctgccagGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGC < GWNJ‑0478:712:GW2002102894th:2:2110:9187:72114/71‑1 (MQ=60)
GCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtctt > GWNJ‑0478:712:GW2002102894th:2:2204:3251:85454/1‑92 (MQ=60)
gtgggctcggagatgtgtataagagacaGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGG < GWNJ‑0478:712:GW2002102894th:2:2109:8956:94660/122‑1 (MQ=60)
GCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaagcacaa > GWNJ‑0478:712:GW2002102894th:2:1109:1405:87008/1‑67 (MQ=60)
GCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttc > GWNJ‑0478:712:GW2002102894th:2:1213:20418:14085/1‑91 (MQ=60)
CAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCAT < GWNJ‑0478:712:GW2002102894th:2:2206:14691:74818/148‑1 (MQ=60)
CGTACCCACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCC < GWNJ‑0478:712:GW2002102894th:2:2114:13527:8526/150‑1 (MQ=60)
CACGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtat > GWNJ‑0478:712:GW2002102894th:2:2116:14992:100155/1‑99 (MQ=60)
CGCATACGGCCGGCGGCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATctgtctcttatac > GWNJ‑0478:712:GW2002102894th:2:1101:19340:49282/1‑136 (MQ=60)
GCGGCTGCCAGGGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaacagtaaagaccagacaatgtacgctg > GWNJ‑0478:712:GW2002102894th:2:2104:2966:52683/1‑47 (MQ=60)
|
GTTTTTAATCTGTATGGCGGGAGATCAGAAGGAGGGTAACGCCGTAACTTGACGCAGGACTTACTGCGGTCCTGATGCGTTCTGACTGCGTTCAGCGCGGGCACTGCTCAGGCGTACCCACGCATACGGCCGGCGGCGGCTGCCA‑GGGGATGGCGGCGCGGCACACCGGACGGGCTCTATCTTTATCTCCCCACCGAGCCTTGGCCGGAGGCACGCTTGCGCATGCCGGCCGGGCGGCTCTGTATCGGCAAGCATTATGCCATGAGGCGGCGCCAAATCGGCCC > AM260479/636963‑637246
|
| 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: ‑ |
