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
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,018,102 |
+C |
intergenic (+111/+98) |
h16_B1778 → / ← h16_B1779 |
putative peptidase/putative peptidase, S33 family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,018,101 | 1 | . | C | 100.0%
| 41.5
/ NA
| 12 | intergenic (+110/+99) | h16_B1778/h16_B1779 | putative peptidase/putative peptidase, S33 family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (6/6); total (6/6) |
GCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTG > AM260480/2017968‑2018209
|
gcAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑Ga > 2:920154/1‑134 (MQ=255)
gCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑cca < 1:1038780/134‑3 (MQ=255)
ttCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑ccatgc > 2:604127/1‑129 (MQ=255)
ggcgggcgGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTC‑‑GGGCATGCCCCGGACCATGCGCACCGATGGcc < 2:800300/120‑1 (MQ=255)
ggcgggcgGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTC‑‑GGGCATGCCCCGGACCATGCGCACCGATGGcc > 1:800300/1‑120 (MQ=255)
gCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑ccatg > 1:340347/1‑80 (MQ=255)
gCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑ccatg < 2:340347/84‑5 (MQ=255)
tGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATg < 1:920154/134‑1 (MQ=255)
cTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAg > 1:274340/1‑133 (MQ=255)
cAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAg < 1:781635/126‑1 (MQ=255)
cAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAg > 2:781635/1‑126 (MQ=255)
cGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGt > 2:565674/1‑124 (MQ=255)
cGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGt < 1:565674/124‑1 (MQ=255)
gccgccCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTgc < 2:274340/134‑1 (MQ=255)
cccTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCAt < 1:604127/134‑1 (MQ=255)
ccTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCAtt > 1:527277/1‑134 (MQ=255)
ggCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTg > 2:597872/1‑134 (MQ=255)
|
GCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTG > AM260480/2017968‑2018209
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
CAAGAGTTGCGCGCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTGGGCGC > AM260480/2017956‑2018247
|
CAAGAGTTGCGCGCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑Cca < GWNJ‑0478:712:GW2002102894th:2:2104:18637:93520/149‑3 (MQ=60)
AGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCC < GWNJ‑0478:712:GW2002102894th:2:2211:5485:87049/150‑1 (MQ=60)
GCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTC‑‑GGGCATGCCCCGGACCATGCGCACCGATGGCCAGCGCCGCCCAGCTC > GWNJ‑0478:712:GW2002102894th:2:2112:2093:55451/1‑150 (MQ=60)
ggctCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCtgtctcttatacacatctccgagcccacgagacac > GWNJ‑0478:712:GW2002102894th:2:1205:19122:33539/5‑115 (MQ=60)
GAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGT > GWNJ‑0478:712:GW2002102894th:2:1116:5933:31324/1‑149 (MQ=60)
ATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGC < GWNJ‑0478:712:GW2002102894th:2:2204:1953:16123/150‑1 (MQ=60)
agacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAA < GWNJ‑0478:712:GW2002102894th:2:2114:14642:63553/93‑1 (MQ=60)
CAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATC < GWNJ‑0478:712:GW2002102894th:2:2113:4252:57573/150‑1 (MQ=60)
CCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGC < GWNJ‑0478:712:GW2002102894th:2:1216:8734:14744/150‑1 (MQ=60)
CAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTG > GWNJ‑0478:712:GW2002102894th:2:1215:9839:35412/1‑150 (MQ=60)
GCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCG < GWNJ‑0478:712:GW2002102894th:2:2103:8966:35551/150‑1 (MQ=60)
ggctcggagatgtgtataagagacagGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGC < GWNJ‑0478:712:GW2002102894th:2:2205:16391:75679/124‑1 (MQ=60)
gtgtataagagacaGGTCCGGGGCATGCCC‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATC < GWNJ‑0478:712:GW2002102894th:2:1212:19844:16916/135‑1 (MQ=60)
C‑‑GACCATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTGGGCGC < GWNJ‑0478:712:GW2002102894th:2:2101:18761:96046/150‑1 (MQ=60)
|
CAAGAGTTGCGCGCAGCGTTCAGGTCGTTGCGCTGAGCGCGGCAGGCGGGCGGCGGCGGGCGCTGAAGCATGGCAATGCCTTCAGCGCCCGAGCCGCCCTTGCTTCGTGCCCGCTTATCCGGGCGCATGGTCCGGGGCATGCCC‑‑GA‑CATGCGCACCGATGGCCAGCGCCGCCCAGCTCCGATGCCAGCGCTGACAGCGTCATGGCAGCCAGTATCAGCAATCTGCGCATTGCGCCCCTCATGCGTCAGCGCCTGTCTACATCGAGCACCGCCTGCGCAAACGCCGTGGGCGC > AM260480/2017956‑2018247
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
