Comparative-genomics~circos-plot-with-single-copy-gene

Draw circos plot with single copy genes. Augustus and Orthofinder are used.

input_1:reference genome file

input_1/LedB17_3_AssemblyScaffolds.fasta

>Scaffold_30
TTCTGAAGAGTATCGATAAAGTTCCCGAAATGAGTTGCAGCCGAAATGAGCTCGCCATGTGTCTGATGCA
GGACTGGCTGTATATCGTCCCATGCCACCTGGTCCTGCAGGGTATTTGTAGACTCCAGCTGCTGCTGCAG
TTGCGAAATTCTCCTTTGTAAGTCGCTCGGCCTCGGCAACTGCTGTTTCCTTTTCGGAATTGGCTTTCAG
AGCGTTTGATGCTTCTCGGGCATTTTCATCCCGGAGTTCTTGAACAAGTTGGGCAATGCTGGCTTTGTCA
GCCTCTTGCTGCTGCGACCACCTTCTGGTACTTTTCTGCACAGCGATCGATAATATCAAAGCACTTGCGA
TGGGAAGACTCGAGGCGCCTTTTCTTGGACCGTTCCACGGAGCTTTTCTAGTATCACGTTAGCAAAGGCT
ATTGGAACTTTCATGATCTCACCATCGTATTGTTAGGCGATGAGGTAATCAAACCTACACTGATTCTGCT
CGGGTCGGGCTTAAAGAGGCAGAGTCGGTATCAGATTTCGAGATGGTCGATCGGACCGAGCGACACGATG
AGTTTCCGGATACACCAGTGCGTGGTTTGGACTTGCTGGAATCTCTGCCAGTAGTGCTTCGAGAATGCCT

input_2:target genome file

input_2/cnv2_edited.fasta

>1
CCTCGGTCGGCGCCATCTCCTCCTCGACTATTTCCTCCTCCATCTCCTTCTCCCTCTCCTCCACTTCTTCTTCTTCCTCCCTTTCTTCTTCACTCTCCTCAACAACCCTTTGCCGCTTCAGCGGACGCCGCCGCTCGGTGGTCCTCCTCGACGGTCCTGCCGCCGCCGGTCCCTCTCCCATACCCATCAAGGACATCCTAGTGTCCATGGATATGAGGCGCGTATGGTCGTCCTCTTGCCTTCTCAGCAGCTGGCGAAGGTACTGCTGAGTCTTCGAATTCGCCTCTCGTAGGGCCCGGTTATCGGCGAGGAGTTGTGCCATTTGACTTTCGAGGACAGCTAGCCGCTCGCCGCTCGGGCCCGCTCCTCCATCCTTCTTCACTACATAAGGACGACCCGAGTACGAGCATCGTACTTTCGAGTCGTGGCAGGGCTTACATATTACGCTACTCCGCTTGCCAGCCTGCTTCAGGCAAGGGATTTTCTTCGACCTGCACCGTTCGCAAGGTTCTCGGTCTTCTTCGTCCTCATCATCGTCGTCGCCGTCGTCGCCGTCGTCTGGGTCCTCATCGACGACCTGAGTAGAAACAAGTCAATAAAGAAAATTTAATGTTAGCCGAAAAAGACGTACCGGGGCCTTGGCTTTACCCTTTCCCTTATTCTTCATCTTCGATATCTCCACAATAGGTCTCCTCGGCGAAGCAGAAACATCCCCGGTGGAAGTTCCGCCTTGACTTCTGGCGGTAGCAGCCTCCGCCAACTTCCTCCGTCGTTCGACGATCTCGTCTTCCTGTTCTCGAGCCCGGACGGCCCGATCGCGAGCATCTTGAGCAGCTTGGCGTCTCGCCGCCGCCGCTCGCTCCGCCGCCTACTTCTTCTTTTCCGCCTCCTCTGCCGCCTTCTTAGCAGCTGCCTCCTCCGCTGCCTTCCTTTTAGCAGCCTCCGCTGCCTTCCGCGCCTTCACCCTCTCAACCCTCGCAAGGGCCTCCCTGATGATTTCGTCTTCGTCTTTGTCGATAGGGGCGCCGGGACTCGGAGGATCGGCGGGGCGAGAAGAGGTACTGGCGGAGGGTTGGGTGGTCGTGGTGGTTCGGCTGGTCGTCATGTTGGTGGACTTAGAAGATTTTGAGAGAGTTAGGGCCTTAGCGGCAAAACCCTGGGCCTTTTATAGGAAAAAAACTGCGCACGGACCAGCGAAAATTTTCCTTCGAGTTGTACGGGGTGTACGGTGAACCGAAAATTTTCACTGATGACTAACGCCAATTCCCGGTACTAACGGCTTTTGAAAATTCTCCTGCTGACTGATGGGCCAAATCCCCGATCCTGACGGCCTTTGAAATTTTTCTTTGGTGACTAACCAACTACCGGTATTAATGGCTTTCGAGGGCTCAAGCCTAAGAGGGGATACTGTCAAGTCCATGCCGCGGGCCTCCATTCCGCCGCTCGGTACTCCGAAGATCCACTCGTTATTGTAATCTCACTCTTATTGTTCTTTCTCGCTACACATACCCTTTCGTGCTAGTCCCTTCTTATTGTCTTTTACTCTACCCTGCAGGTACTACTCGTACAGCTCCTAGTAGTTAGTCTGGCGCTCCGCACCGATGCGCCGTTCCGTAGATATAAATACTGCCTGTACGCTACTGTAGTTCCTCAGTTTAATTATCAACTTAGATCAACTTAGATCTCCCTTTCCAACTTAACTCTCCTCTAAGTCTTCAGGTTCAACGCCTCGAAGTACGTTCTCCTCGACCTTAGGACTTTAACGTTCTCTGGTCCGCTCCTCGTCATCGGCGATACCGCCGCTCCGACCTGGCTGCTACTTAGCTCCTCTCTCTCTACTCTCGCTCTCCGGGGACTAACGGCGTAACGGCGGTGTTGTTAATAACTTCACTACTGTCCCATTCGTCTTCCGCACTTAGACACCCTGTGGCCTTGGCACGGTTACACGGTGTACATGATCTTAACATGAGCATGATATAGCATATATACTATGTTATACACCTATCGAACTTAATCTGCTGTAGAGAAACCACTCTGAAGAGGGTGTTGTTCCTTGAATTCAGCCCTCGGGAGTCAGAAAATATATCCAAGAAGCGCCATTATTTTTGCTCCCACGTCCTCAACCTCTTTCCACCACTGCGACTTTACTTTCTCCATCACTGTTTTGTTGCCACAGATCCCCTGTAGCAGCCTGTAACATGGTAAGTTCTCAAACTATCTTTTGAAAAACTTTCTCACCTGTTCTCTAGCTCTTTGATACCGTGTCTTATTCCATCTCCCAGCTCTGCTTGTGAACATTTTCCATCTGCGCAAACTGTTCTCTCCCCCAGGGATTCCTCGTAACAAGTACGTGCTGTCTATGTTGCTCTCTTTCTGATGCACATAGCTGAGCTAATTAGCTTAGCATCTGCAACCCAAACAGCTCTTTAACACCCCTATCCTATCCTCAGCTCCGTTGTGAACACACTCCATTTGTGCAATGCATTTTCTCTCCTCAATACTCCCTGGGGCACTTTTGTACCAAGTAAGTGCTACACGCATTGCTCCTTCCTATGCACATATTCACAGCTGGTTTGATTACTATCTAGCAGCCACTATCTAAAACTCAACATATGACATTGTCCGCATCTCATACACGAAAGTTGTGGTTTTTTGTGTGAGTCCTTGATTTTTTTGCCATCTCCTCTACTCAACACAAGGTGTCTTCATGATTTCTAGCATGGTTCCTGCCCTTTACTTTCACTGCCATCCCAATGCCATCCTCCTCAGTCACCATCATTATTTTGTGAATTGTACCCTTCGCCCACATTATGTTACCATGTTACCATGTTGCCTACTTACAACTGTTCACTCTGTCATTCACTACTTGCTATCCTAATGACATGTTGCCTTATATATATTGCTCATGTCACTCATTTCAATGTGCACAAGTTGAACGAACTTACCCTCCACCTGTAGCTCTGATAATGATCTAATGCAACATAGATTGTGGTGTA

Command

Comparative-genomics~circos-plot-with-single-copy-gene -c 16 -s saccharomyces input_1/LedB17_3_AssemblyScaffolds.fasta input_2/cnv2_edited.fasta

Output

circos.png

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