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 |
AM260479 |
561,006 |
+G |
intergenic (+9/+38) |
h16_A0532 → / ← h16_A0533 |
conserved hypothetical protein/universal stress protein, UspA family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 561,005 | 1 | . | G | 100.0%
| 74.5
/ NA
| 20 | intergenic (+8/+39) | h16_A0532/h16_A0533 | conserved hypothetical protein/universal stress protein, UspA family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (9/11); total (9/11) |
GGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATC > AM260479/560874‑561125
|
ggCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑gg > 1:621686/1‑133 (MQ=255)
gCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑ggt < 2:605728/134‑3 (MQ=255)
cGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGcgcc > 1:152762/1‑134 (MQ=255)
ggCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGcgccg > 1:928196/1‑134 (MQ=255)
cGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAAttt < 2:357017/133‑1 (MQ=255)
ggCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGc < 2:911394/134‑1 (MQ=255)
aCGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCa < 1:85754/134‑1 (MQ=255)
ggCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAAc > 1:6406/1‑134 (MQ=255)
cTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCttt < 2:152762/133‑1 (MQ=255)
cATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGa > 1:343452/1‑134 (MQ=255)
cTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACcag < 2:343452/134‑1 (MQ=255)
aaCAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGgcgc > 1:201453/1‑112 (MQ=255)
aaCAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGgcgc < 2:201453/112‑1 (MQ=255)
cAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCActc > 1:30575/1‑134 (MQ=255)
aTGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAg < 2:632786/134‑1 (MQ=255)
gACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCAc > 1:1140376/1‑134 (MQ=255)
cGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCAcgc < 2:621686/134‑1 (MQ=255)
cGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCAcgc < 2:928196/134‑1 (MQ=255)
gcgcCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGcc > 2:773242/1‑134 (MQ=255)
ccTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGc < 2:1025535/63‑1 (MQ=255)
ccTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGc > 1:1025535/1‑63 (MQ=255)
ccTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATc < 2:30575/134‑1 (MQ=255)
|
GGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATC > AM260479/560874‑561125
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
GCTCGCCAGCCGCTGGGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACCGCGGCCATG > AM260479/560859‑561154
|
GCTCGCCAGCCGCTGGGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑Ggt > GWNJ‑0478:712:GW2002102894th:2:2102:19611:49861/1‑148 (MQ=60)
GCCGCTGGGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCG > GWNJ‑0478:712:GW2002102894th:2:1111:4664:8921/1‑150 (MQ=60)
CCGCTGGGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGC > GWNJ‑0478:712:GW2002102894th:2:2204:2684:64651/1‑150 (MQ=60)
CCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACC > GWNJ‑0478:712:GW2002102894th:2:1101:12710:43081/1‑150 (MQ=60)
CACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGG < GWNJ‑0478:712:GW2002102894th:2:1107:5129:29854/150‑1 (MQ=60)
CTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGAC > GWNJ‑0478:712:GW2002102894th:2:1205:20414:51482/1‑150 (MQ=60)
tcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCAC < GWNJ‑0478:712:GW2002102894th:2:2216:15329:65209/84‑1 (MQ=60)
TCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCtgtctct > GWNJ‑0478:712:GW2002102894th:2:1113:8523:64878/1‑143 (MQ=60)
CTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCT > GWNJ‑0478:712:GW2002102894th:2:1103:5989:94208/1‑150 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCC < GWNJ‑0478:712:GW2002102894th:2:2207:6344:10640/104‑1 (MQ=60)
CAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACG > GWNJ‑0478:712:GW2002102894th:2:2215:12964:92288/1‑150 (MQ=60)
GATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCtgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtc > GWNJ‑0478:712:GW2002102894th:2:2211:9811:19107/1‑94 (MQ=60)
AGGTCTACCGGTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACC > GWNJ‑0478:712:GW2002102894th:2:2215:18377:20292/1‑150 (MQ=60)
G‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACCGCGGCCATG > GWNJ‑0478:712:GW2002102894th:2:2216:8293:55267/1‑150 (MQ=60)
|
GCTCGCCAGCCGCTGGGCCGACCCGGCCTTTCCGGCCGCGTTCCCTTGGTTCGGCACGGCGCGCTACTGGCAGGATCGCATCCTCGAACTGCGCGAACAGGTGGCGCTGATGGACGAAGCGCCCCTGTGGGGCGCCTGAGGTCTACC‑GTCGGCGCCGCCAGGGCGCCGGTTTTCCACTAATTTGCTCAACCCTTCTTTTCCGGCGCCTTGACCAGCAGCACCGGGCACTCTGCCTGCGCCAGCACGCGGCCTGCGACTGAACCGATCACCGCATCGAAGAACGAACCGCGGCCATG > AM260479/560859‑561154
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
