PoSeCo | Poliovirus Sequencing Consortium
piranha | Poliovirus Investigation Resource Automating Nanopore Haplotype Analysis

 

Detailed information on Sample06 2023-10-30


Table 1 | Summary of sample content

Sample Barcode Reference Group
Sample04 barcode04 Sabin3-related

Sequences (VP1)

>Sample04|Sabin3-related|CNS1|LON002|2022-01-05 barcode=barcode04 reference=Poliovirus3-Sabin_AY184221 ddns_group=Sabin3-related runname=MIN001 variant_count=8 variants=17:CT;161:CT;427:GA;497:AC;507:CT;772:AG;822:CT;870:CA
GGTATTGAAGATTTGATTTCTGAAGTTGCACAGGGCGCCCTAACTTTGTCACTCCCGAAGCAACAGGATAGCTTACCTGATACTAAGGCCAGTGGCCCGGCGCATTCCAAGGAGGTACCTGCACTCACTGCAGTCGAGACTGGAGCCACCAATCCTCTGGTACCATCCGACACAGTTCAAACGCGCCACGTAGTCCAACGACGCAGCAGGTCAGAGTCCACAATAGAATCATTCTTCGCACGCGGGGCGTGCGTCGCTATTATTGAGGTGGACAATGAACAACCAACCACCCGGGCACAGAAACTATTTGCCATGTGGCGCATTACATACAAAGATACAGTGCAGTTGCGCCGTAAGTTGGAGTTTTTCACATACTCTCGTTTTGACATGGAATTCACCTTCGTGGTAACCGCCAACTTCACCAACACTAATAATGGGCATGCACTCAACCAGGTGTACCAGATAATGTACATNCCCCCAGGGGCACCCACACCAACGTCATGGGATGACTACACTTGGCAAACATCTTCCAACCCGTCCATATTTTACACCTATGGGGCTGCCCCGGCGCGAATCTCAGTGCCATACGTGGGGTTAGCCAATGCTTACTCGCACTTTTACGACGGCTTCGCCAAGGTGCCATTGAAGACAGATGCCAATGACCAGATTGGTGATTCCTTGTACAGCGCCATGACAGTTGATGACTTTGGTGTATTGGCAGTTCGTGTTGTCAATGATCACAACCCCACTAAAGTAACCTCCAAAGTCCGCGTTTACATGAAACCCAAACACGTACGTGTCTGGTGCCCTAGACCGCCGCGTGCGGTACCTTATTATGGACCAGGGGTGGACTATAGGAACAACTTGGAACCCTTATCTGAGAAAGGTTTGACCACATAT


Variant report: Sabin3-Related

Table 2 | Sabin3-related

Information
Reference group Sabin3-related
Number of mutations 8
Mutations 17:CT
161:CT
427:GA
497:AC
507:CT
772:AG
822:CT
870:CA


Figure 1 | Variation (errors + mutations) across Sabin3-Related reference in Sample06

2023-10-30T14:13:08.562114 image/svg+xml Matplotlib v3.8.0, https://matplotlib.org/

Figure 2 | snipit plot for queries in Sabin3-Related

Figure 3 | Co-occurrence matrix of Reference and Variant alleles called against Sabin3-Related reference in Sample06. This is the percentage of bases that cover those sites in the mapping file that are of a high quality (>13) and that are either the reference allele or the allele of the variant called at that site.