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 |
AM260480 |
1,518,085 |
C→T |
A85T (GCC→ACC) |
h16_B1356 ← |
conserved hypothetical membrane spanning protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 1,518,085 | 0 | C | T | 100.0%
| 51.7
/ NA
| 15 | A85T (GCC→ACC) | h16_B1356 | conserved hypothetical membrane spanning protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (8/7); total (8/7) |
GGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGCCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGC > AM260480/1517954‑1518205
|
ggATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGtcc > 1:658887/1‑134 (MQ=255)
gCAGCGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTCGATCCCGGTCAGCAGCACGGCCGAGACGATCa > 2:774511/1‑134 (MQ=255)
gggCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCg > 1:279939/1‑134 (MQ=255)
aGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACg < 1:774511/134‑1 (MQ=255)
aaCGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGaa > 1:60982/1‑134 (MQ=255)
ttGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGcc > 2:133307/1‑133 (MQ=255)
gTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTca < 1:281405/83‑1 (MQ=255)
gTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTca > 2:281405/1‑83 (MQ=255)
gTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGcc < 1:326255/126‑1 (MQ=255)
gTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGcc > 2:326255/1‑126 (MQ=255)
gTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGtca > 1:32521/1‑134 (MQ=255)
ggCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCcgcg < 2:279939/134‑1 (MQ=255)
ggCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCcgcg < 2:932011/134‑1 (MQ=255)
cACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGcc < 2:60982/134‑1 (MQ=255)
tCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGaa < 2:88415/134‑1 (MQ=255)
gTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGc > 1:536943/1‑132 (MQ=255)
|
GGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGCCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGC > AM260480/1517954‑1518205
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCGCGGCATCGCCCTGGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGCCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGCCAGCAGCAGGAT > AM260480/1517939‑1518217
|
GCGCGGCATCGCCCTGGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCG > GWNJ‑0478:712:GW2002102894th:2:2111:19021:18828/1‑150 (MQ=60)
CATCGCCCTGGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACAC < GWNJ‑0478:712:GW2002102894th:2:1212:5953:100756/150‑1 (MQ=60)
GCCCTGGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAG < GWNJ‑0478:712:GW2002102894th:2:1213:11796:98185/150‑1 (MQ=60)
GCCCTGGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAG < GWNJ‑0478:712:GW2002102894th:2:1211:20848:38839/150‑1 (MQ=60)
tagatgttccgtcagttgtacaacgtattcaatctttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCC < GWNJ‑0478:712:GW2002102894th:2:1113:8476:84350/37‑1 (MQ=60)
tgccagcatGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCG > GWNJ‑0478:712:GW2002102894th:2:1106:16911:4972/10‑150 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagacagGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGA < GWNJ‑0478:712:GW2002102894th:2:1203:12358:70224/113‑1 (MQ=60)
TGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGC > GWNJ‑0478:712:GW2002102894th:2:1203:19512:60430/1‑150 (MQ=60)
AGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCtgtctcttatacacatctccgagcccacgagacgg > GWNJ‑0478:712:GW2002102894th:2:1102:17517:2406/1‑115 (MQ=60)
GGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAAT > GWNJ‑0478:712:GW2002102894th:2:1104:3460:24659/1‑150 (MQ=60)
CAGGTAACGGTGGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTC < GWNJ‑0478:712:GW2002102894th:2:2116:20491:77554/150‑1 (MQ=60)
GGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttga > GWNJ‑0478:712:GW2002102894th:2:2111:15468:40391/1‑82 (MQ=60)
GGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCAT > GWNJ‑0478:712:GW2002102894th:2:1105:13608:28865/1‑150 (MQ=60)
GGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACC < GWNJ‑0478:712:GW2002102894th:2:1204:3469:71706/150‑1 (MQ=60)
TTCGTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaacaaaataaaacggggacacagtagtatccagaatt > GWNJ‑0478:712:GW2002102894th:2:1109:3525:62972/1‑43 (MQ=60)
GTTGAGCGGATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGCC > GWNJ‑0478:712:GW2002102894th:2:2101:19104:98905/1‑148 (MQ=60)
GATCCAGGTCGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGCCAGCAGCAGG > GWNJ‑0478:712:GW2002102894th:2:1105:11497:15083/1‑149 (MQ=60)
aagagacaGCGGTTGGTCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGCCAGCAGCAGGAT < GWNJ‑0478:712:GW2002102894th:2:1213:10641:19085/141‑1 (MQ=60)
|
GCGCGGCATCGCCCTGGATGGCGGGGGCCGCCGCGGCGGCCATGCTGGCAAGCCCGAGCAGGGCCGCGCACAGGTAACGGTTGGCGGGTTTCATGCCCGGCACTCCTTGCGCACGCGTTCGTTGAGCGGATCCAGGTCGCGGTTGGCCCGGTACACGTAGATCCCGGTCAGCAGCACGGCCGAGACGATCACCGCCACGCCGACGGGAATGCCCACCGTCATCACACCCGCGCCGAGCGGTGTGCCGAGCGTGGCCGGCGAGAACGCCAGCAGCAGGAT > AM260480/1517939‑1518217
|
| 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: ‑ |
