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 |
2,594,082 |
T→C |
Q124Q (CAA→CAG) |
cR ← |
Recombinational DNA repair protein (RecF pathway) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,594,082 | 0 | T | C | 100.0%
| 69.6
/ NA
| 19 | Q124Q (CAA→CAG) | cR | Recombinational DNA repair protein (RecF pathway) |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/9); total (10/9) |
CGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTG > AM260479/2593953‑2594205
|
cgccgcgccgCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGc < 1:478241/133‑1 (MQ=255)
ccgcgcAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGt > 1:517106/1‑134 (MQ=255)
gcagcgcaTCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCgg < 2:571805/133‑1 (MQ=255)
gcagcgcaTCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCgg > 1:571805/1‑133 (MQ=255)
gcgcgcgcCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGt < 2:817116/132‑1 (MQ=255)
cgcgGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGc > 1:479880/1‑92 (MQ=255)
cgcgGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGc < 2:479880/92‑1 (MQ=255)
gcTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGa > 1:148185/1‑73 (MQ=255)
gcTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGa < 2:148185/73‑1 (MQ=255)
gcTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGccc > 1:822157/1‑133 (MQ=255)
cTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTcac > 2:955226/1‑84 (MQ=255)
cTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTcac < 1:955226/84‑1 (MQ=255)
gACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATc > 2:1012569/1‑134 (MQ=255)
gACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATc > 2:935735/1‑134 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCt > 1:224132/1‑134 (MQ=255)
cGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCt > 1:175958/1‑134 (MQ=255)
gACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCtt < 2:175958/134‑1 (MQ=255)
cGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTg < 2:224132/133‑1 (MQ=255)
cGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTg < 1:1012569/133‑1 (MQ=255)
|
CGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTG > AM260479/2593953‑2594205
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
ATGGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTG > AM260479/2593938‑2594220
|
ATGGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAG < GWNJ‑0478:712:GW2002102894th:2:2109:9522:30920/150‑1 (MQ=60)
GGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCG < GWNJ‑0478:712:GW2002102894th:2:1111:18824:53392/150‑1 (MQ=60)
ATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTC > GWNJ‑0478:712:GW2002102894th:2:2101:8377:24521/1‑150 (MQ=60)
GGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGG > GWNJ‑0478:712:GW2002102894th:2:2104:17465:5486/1‑150 (MQ=60)
CCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGAC < GWNJ‑0478:712:GW2002102894th:2:1215:4904:92505/149‑1 (MQ=60)
cgtttctatgtctgtctgtctttttgtttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCAC < GWNJ‑0478:712:GW2002102894th:2:1109:20587:83985/44‑1 (MQ=60)
atgggtgtggtttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGT < GWNJ‑0478:712:GW2002102894th:2:2114:11662:8272/62‑1 (MQ=60)
tttttctttgttttctttttttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGT < GWNJ‑0478:712:GW2002102894th:2:1201:13505:99136/45‑1 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagaCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAAC < GWNJ‑0478:712:GW2002102894th:2:2212:13256:93095/117‑1 (MQ=60)
GCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACctgtctcttatacacatctccgagccc > GWNJ‑0478:712:GW2002102894th:2:1214:20550:2285/1‑122 (MQ=60)
GGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTctgtctcttatacacatctccgagcccacgagacggagctacatctc > GWNJ‑0478:712:GW2002102894th:2:1111:8282:70488/1‑103 (MQ=60)
GGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCG > GWNJ‑0478:712:GW2002102894th:2:2204:13983:77222/1‑149 (MQ=60)
GGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTT > GWNJ‑0478:712:GW2002102894th:2:1113:11191:37013/1‑150 (MQ=60)
GGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTT > GWNJ‑0478:712:GW2002102894th:2:1114:14634:20789/1‑150 (MQ=60)
TCGACCAGTGCCTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACG‑GCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTG < GWNJ‑0478:712:GW2002102894th:2:2216:5853:19726/149‑1 (MQ=60)
|
ATGGCGGATATGGTCCGCCGCGCCGCGCAGCGCATCGCCCAGCTTGCGCGCGCCCTCGCGGTCGTGCTGCAGCAGGTGGTAGGCCATGCGCTGGGCGGACTTGGGCCCGACGCCGGGCAGCACCCGCAGCGCTTCGACCAGTGCTTGCAGCGAGGTCGGGGACGATGCCTTCACAGTGGCGTTCAGAACGCGCAGCTTGAAGCCCGGGGGCAGCGGCAGGCCCGAGGTCATCGAGCCCATCTTTTCCTGCGAGGTGGCTTCGGCCTTGCGCACGGCGTCATTG > AM260479/2593938‑2594220
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
