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 |
AM260480 |
1,540,787 |
T→C |
K465R (AAG→AGG) |
coxL6 ← |
Aerobic‑type carbon monoxide dehydrogenase homolog, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 1,540,787 | 0 | T | C | 100.0%
| 74.3
/ NA
| 20 | K465R (AAG→AGG) | coxL6 | Aerobic‑type carbon monoxide dehydrogenase homolog, large subunit |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/10); total (10/10) |
GAGCGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCTTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATCGGCTCGC > AM260480/1540660‑1540907
|
gAGCGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAg < 1:185247/133‑1 (MQ=255)
gcgATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAg < 1:1063087/134‑1 (MQ=255)
cGGGAACGGATAAGGACTGTCGTTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCAcct > 2:719768/1‑134 (MQ=255)
tCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATg > 2:801744/1‑134 (MQ=255)
cgagtcgaCCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCggtgcaggtgca > 1:951567/1‑134 (MQ=255)
aCGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTc < 2:354663/98‑1 (MQ=255)
aCGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTc > 1:354663/1‑98 (MQ=255)
gTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGt < 1:576913/85‑1 (MQ=255)
gTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGt > 2:576913/1‑85 (MQ=255)
gTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCAt < 1:67134/113‑1 (MQ=255)
gTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCAt > 2:67134/1‑113 (MQ=255)
gTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCcgcg < 2:951567/134‑1 (MQ=255)
ggCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACgtcgtc < 2:310843/128‑1 (MQ=255)
ggCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACgtcgtc > 1:310843/1‑128 (MQ=255)
tGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTc < 1:801744/134‑1 (MQ=255)
gacgaTCACGTGCCTCCAGGCCAGCAccttgcccttg < 1:1019662/37‑1 (MQ=37)
gacgaTCACGTGCCTCCAGGCCAGCAccttgcccttg > 2:1019662/1‑37 (MQ=37)
gacgaTCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGt < 1:486146/44‑1 (MQ=255)
gacgaTCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGt > 2:486146/1‑44 (MQ=255)
gacgaTCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATCGGCTcgc > 1:454262/1‑134 (MQ=255)
|
GAGCGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCTTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATCGGCTCGC > AM260480/1540660‑1540907
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
ATGGATCTCGAGCGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCTTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATCGGCTCGCGCCGGCCGGCCGCGTAGCGCGCCTTGGCC > AM260480/1540651‑1540936
|
gtataagagacagGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCAC < GWNJ‑0478:712:GW2002102894th:2:2213:18854:71456/137‑1 (MQ=60)
CGAGCGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCC < GWNJ‑0478:712:GW2002102894th:2:1113:15940:2928/149‑1 (MQ=60)
CGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCC < GWNJ‑0478:712:GW2002102894th:2:2212:13823:14814/150‑1 (MQ=60)
gtttattttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATG < GWNJ‑0478:712:GW2002102894th:2:2208:14177:87728/67‑1 (MQ=60)
tttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGC < GWNJ‑0478:712:GW2002102894th:2:1213:17137:78828/74‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacaGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGC < GWNJ‑0478:712:GW2002102894th:2:2101:14640:16578/116‑1 (MQ=60)
GCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCAT > GWNJ‑0478:712:GW2002102894th:2:2209:20669:5038/1‑150 (MQ=60)
gagacaGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCC < GWNJ‑0478:712:GW2002102894th:2:1104:6816:29247/144‑1 (MQ=60)
caagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCC < GWNJ‑0478:712:GW2002102894th:2:2115:9193:28006/84‑1 (MQ=60)
ccgttcgaGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCtgtctcttatacacatctccg > GWNJ‑0478:712:GW2002102894th:2:1204:5243:48296/9‑129 (MQ=60)
GTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGC > GWNJ‑0478:712:GW2002102894th:2:1203:9506:70618/1‑150 (MQ=60)
GTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATC < GWNJ‑0478:712:GW2002102894th:2:2112:7330:83433/150‑1 (MQ=60)
GGTGATGGACTGGCCGACGATCACGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATCGGCTCGCG > GWNJ‑0478:712:GW2002102894th:2:1210:1359:16222/1‑150 (MQ=60)
CGTGCCTCCAGGCCAGCACCTTGCCCTTGCCATCGTGctgtctcttatacacatctccgagcccacgagacactcgctaaactcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaagaaagcaaaaatcgggaagcatacaataac > GWNJ‑0478:712:GW2002102894th:2:1203:5450:4199/1‑37 (MQ=60)
CTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaacacgaaaagaaaacaa > GWNJ‑0478:712:GW2002102894th:2:2106:4441:19441/1‑57 (MQ=60)
CTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtctt > GWNJ‑0478:712:GW2002102894th:2:1115:18844:52576/1‑92 (MQ=60)
|
ATGGATCTCGAGCGCGATCGGGAACGGATAAGGACTGTCGCTCACGCCCTCGACCATGGTCGAGTCGACCCCGTTCTTCACGGTGAAGGACTCGAACGGCGTGCCGCTGGTGATGGACTGGCCGACGATCACGTGCTTCCAGGCCAGCACCTTGCCCTTGCCATCGTGGCCGATGTCAACGCGGTGCAGGTGCATCGGGCGGTAGTAGCCGCCGCGCACGTCGTCTTCGCGCGTCCAGATCATCTTGATCGGCTCGCGCCGGCCGGCCGCGTAGCGCGCCTTGGCC > AM260480/1540651‑1540936
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
