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
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,056,947 |
+G |
intergenic (+211/‑15) |
h16_A0964 → / → h16_A0965 |
conserved hypothetical protein/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,056,945 | 1 | . | G | 100.0%
| 51.2
/ NA
| 15 | intergenic (+209/‑17) | h16_A0964/h16_A0965 | conserved hypothetical protein/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (8/7); total (8/7) |
GCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGG > AM260479/1056825‑1057043
|
gCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGccgcccgc > 2:212106/1‑132 (MQ=255)
cAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCcgcg < 1:319745/127‑1 (MQ=255)
cAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCcgcg > 2:319745/1‑127 (MQ=255)
ccgccgGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCcgcg < 1:46002/124‑1 (MQ=255)
ccgccgGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCcgcg > 2:46002/1‑124 (MQ=255)
tggCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGa < 1:858935/106‑1 (MQ=255)
tggCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGa > 2:858935/1‑106 (MQ=255)
tggCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGAcccc > 2:807211/1‑134 (MQ=255)
cAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTc < 1:716358/114‑1 (MQ=255)
cAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTc > 2:716358/1‑114 (MQ=255)
cAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCggg < 1:807211/134‑1 (MQ=255)
cccGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGc < 1:170842/39‑1 (MQ=25)
cccGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGc > 2:170842/1‑39 (MQ=25)
ccGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCa < 1:857565/51‑1 (MQ=38)
ccGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCa > 2:857565/1‑51 (MQ=38)
|
GCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGG > AM260479/1056825‑1057043
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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
GTGCATTAGCTTCTGTTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTGCCGCTGCGCTACGGCCGCATGATCCAG > AM260479/1056808‑1057084
|
GTGCATTAGCTTCTGTTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCC > GWNJ‑0478:712:GW2002102894th:2:2107:6871:27098/1‑150 (MQ=60)
cgtatatttttgctttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGG < GWNJ‑0478:712:GW2002102894th:2:2205:5223:57042/59‑1 (MQ=60)
tattttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACG < GWNJ‑0478:712:GW2002102894th:2:1113:9057:6589/69‑1 (MQ=60)
ACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGC < GWNJ‑0478:712:GW2002102894th:2:1102:8162:13945/150‑1 (MQ=60)
ACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGC < GWNJ‑0478:712:GW2002102894th:2:1204:11904:54979/150‑1 (MQ=60)
ttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAA < GWNJ‑0478:712:GW2002102894th:2:2209:2624:100476/81‑1 (MQ=60)
gtataagagacaGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGT < GWNJ‑0478:712:GW2002102894th:2:2206:5529:9137/137‑1 (MQ=60)
agacagCGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATC < GWNJ‑0478:712:GW2002102894th:2:2115:16167:3927/144‑1 (MQ=60)
CCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCAGGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTGC < GWNJ‑0478:712:GW2002102894th:2:2202:16913:78265/150‑1 (MQ=60)
gacagcggcagGGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTGCCGCTGCGCTACGGCCGCATGATCCAG < GWNJ‑0478:712:GW2002102894th:2:1106:8125:60538/139‑1 (MQ=60)
|
GTGCATTAGCTTCTGTTGCAGATGCTGCACAAATGGCAACCGCCGGCGGCGCCGGCATTGGGGGCATGGTGGCGACACGTCAGGAGGGCGGGCAAGCCGTGGCCAAGGGTACTGTCGAGGCCCGGCGCGAGCGCGGCA‑GGCCGCCCGCCAGCAGGTGCCGCGCGGTGCGCACGAGGCCATCGGCAACGTCGACCGCGACCCCGTCGAACTGCTGGAAATCAGCAGCCAGGGCCGGGTTGAGCGGCTGGTGCCGCTGCGCTACGGCCGCATGATCCAG > AM260479/1056808‑1057084
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
