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B, Evaluated with markers aligned to A genome uniquely (3296).
Development of markers aligned to BAC-end sequences is desired for several reasons.
HG2 aligned to Sb5 and Sb6 with 8 LGs containing markers aligned to both chromosomes.
The Least Square method was used to compute the orientation of the scaffold that had multiple markers aligned to them.
The DArT markers aligned to all ten sorghum chromosomes with the largest number having homology to Sb1 (Table 5).
Furthermore, DG markers aligned to sequences present in seven super-contigs that are not currently merged with the 10 pseudomolecules that comprise the reference sequence.
Similar(46)
The percentages of markers aligning to the A2 and D5 reference genomes were very similar for G. hirsutum (70.6%/40.9%) and G. barbadense (69.6%/41.1%), whereas the percentage was very different for G. longicalyx (55%/18.4%).
Using either Bowtie or BLAST with a more stringent cutoff E-value < 1 × 10−20, resulted in fewer SNP markers aligning to unmatching chromosomes of the M. truncatula reference genome.
The number of scaffolds that a marker aligned to were examined; after filtering, the majority of the markers were homologous to a single scaffold (Supplemental Fig. 3A D).
The top plot of each figure shows B allele frequencies for each chromosome 4 SNP marker aligned to its chromosomal position.
Three DG markers that aligned to a region of the reference sequence on SBI-06 mapped in a cluster on SBI-07 and a DG marker aligned to the reference sequence on SBI-02 was mapped to SBI-03, indicating that the sequence assembly in these regions should be reexamined.
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CEO of Professional Science Editing for Scientists @ prosciediting.com