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
Sample06 barcode09 Sabin1-related

Sequences (VP1)

>Sample06|Sabin1-related|CNS1|EDI004|2022-05-01 barcode=barcode09 reference=Poliovirus1-Sabin_AY184219 ddns_group=Sabin1-related runname=MIN001 variant_count=50 variants=6:AG;23:GA;78:TC;138:AG;141:GA;144:AG;150:GA;163:CT;195:TC;228:CT;258:CT;262:GA;270:AG;273:CT;296:AC;297:GA;299:AG;318:AG;336:TC;357:GA;372:CT;381:TC;399:AG;417:TC;423:TC;444:GA;450:CT;456:TC;486:AG;492:TC;565:AG;567:AG;585:GA;600:TC;624:TC;627:CT;654:GA;669:AG;670:CA;717:TC;718:TC;759:CT;777:GA;781:CT;795:CT;834:GA;846:TC;855:TC;867:TC;888:CT
GGGTTGGGTCAGATGCTTGAAAACATGATTGACAACACAGTCCGTGAAACGGTGGGGGCGGCAACGTCTAGAGACGCCCTCCCAAACACTGAAGCCAGTGGACCAGCACACTCCAAGGAAATTCCGGCACTCACCGCGGTAGAGACTGGAGCCACAAATCCATTAGTCCCTTCTGATACAGTGCAAACCAGACACGTTGTACAACATAGGTCAAGGTCAGAGTCTAGTATAGAGTCTTTCTTCGCGCGGGGTGCATGTGTGACCATTATGACTGTGGATAACTCAGCTTCCACCACAAGTAAGGATAAGCTATTTACGGTGTGGAAGATCACTTACAAAGATACTGTCCAGTTACGAAGGAAATTGGAGTTTTTCACCTACTCTAGATTTGATATGGAGTTTACCTTTGTGGTTACCGCAAACTTCACTGAGACTAACAATGGACATGCTTTAAACCAAGTGTACCAAATTATGTACGTACCACCGGGCGCCCCAGTGCCCGAGAAATGGGACGACTACACATGGCAAACCTCATCAAATCCATCAATCTTTTACACCTACGGAGCGGCTCCAGCCCGGATCTCAGTACCGTATGTTGGCATTTCGAACGCCTATTCACACTTCTATGACGGTTTTTCCAAAGTACCACTGAAAGACCAGTCGGCAGCGATAGGTGACTCCCTCTATGGTGCAGCATCTCTAAATGACTTCGGTATCCTGGCTGTTAGAGTAGTCAATGATCACAACCCGACCAAGGTTACCTCCAAAATCAGAGTATATTTAAAACCCAAACATATCAGAGTCTGGTGCCCGCGTCCACCGAGGGCAGTGGCATACTACGGCCCCGGAGTGGACTACAAGGATGGCACGCTTACACCCCTCTCCACTAAGGATCTGACCACATAT


Variant report: Sabin1-Related

Table 2 | Sabin1-related

Information
Reference group Sabin1-related
Number of mutations 50
Mutations 6:AG
23:GA
78:TC
138:AG
141:GA
144:AG
150:GA
163:CT
195:TC
228:CT
258:CT
262:GA
270:AG
273:CT
296:AC
297:GA
299:AG
318:AG
336:TC
357:GA
372:CT
381:TC
399:AG
417:TC
423:TC
444:GA
450:CT
456:TC
486:AG
492:TC
565:AG
567:AG
585:GA
600:TC
624:TC
627:CT
654:GA
669:AG
670:CA
717:TC
718:TC
759:CT
777:GA
781:CT
795:CT
834:GA
846:TC
855:TC
867:TC
888:CT


Figure 1 | Variation (errors + mutations) across Sabin1-Related reference in Sample06

2023-10-30T14:12:03.506307 image/svg+xml Matplotlib v3.8.0, https://matplotlib.org/

Figure 2 | snipit plot for queries in Sabin1-Related

Figure 3 | Co-occurrence matrix of Reference and Variant alleles called against Sabin1-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.