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@eead-csic-compbio
eead-csic-compbio committed May 13, 2022
1 parent 9bbaacb commit 2f471bf
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Showing 7 changed files with 178 additions and 178 deletions.
318 changes: 159 additions & 159 deletions sample_intersection/intersection_t0.cluster_list
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Original file line number Diff line number Diff line change
Expand Up @@ -3,184 +3,184 @@
# -o sample_intersection
# -I
# -r 0
637_hypothetical_protein.faa
391_hypothetical_protein.faa
420_hypothetical_protein.faa
225_delta-FipA.faa
294_hypothetical_protein.faa
233_YdaA.faa
9_mphA.faa
280_transposase.faa
228_truncated_TnpA.faa
10_mrx.faa
349_transposase_InsF.faa
229_QnrS1.faa
631_traI.faa
643_ccgEIII.faa
636_stbC.faa
243_TnpM.faa
7_transposase_A.faa
229_QnrS1.faa
242_TnpA.faa
635_stbB.faa
626_traO.faa
637_hypothetical_protein.faa
647_mucB.faa
166_unknown.faa
168_unknown.faa
381_hypothetical_protein.faa
634_stbA.faa
438_unknown.faa
198_TnpA.faa
240_putative_invertase-r...faa
289_beta-lactamase.faa
624_traN.faa
245_dfrA14.faa
250_putative_mobilizatio...faa
604_dcm.faa
743_putative_IS91_ORF2.faa
603_ecoRII.faa
282_hypothetical_protein.faa
176_arsB.faa
341_hypothetical_protein.faa
238_TnpA.faa
471_putative_relaxase-he...faa
364_conserved_hypothetic...faa
379_hypothetical_protein.faa
286_streptomycin_phospho...faa
11_blaCTX-M-1.faa
645_ardB.faa
376_hypothetical_protein.faa
641_ccgC.faa
255_hypothetical_protein.faa
629_nuc.faa
297_hypothetical_protein.faa
65_sul1.faa
618_traM.faa
201_VIM-1.faa
172_unknown.faa
69_hypothetical_protein.faa
367_ISEc8_transposase.faa
234_hypothetical_protein.faa
173_arsR.faa
301_putative_transposase.faa
241_PilT.faa
352_resolvase.faa
639_ccgAI.faa
444_FosA.faa
299_site-specific_recomb...faa
609_tetR.faa
35_tnpA.faa
363_putative_transposase...faa
235_hypothetical_protein.faa
416_TraL.faa
417_hypothetical_protein.faa
648_mpr.faa
177_arsC.faa
557_insF.faa
382_conserved_hypothetic...faa
642_ccgD.faa
232_hypothetical_protein.faa
72_mph1.faa
366_excinuclease_ABC-_A_...faa
174_arsD.faa
350_transposase.faa
620_traB.faa
175_arsA.faa
302_conserved_hypothetic...faa
638_ccgAII.faa
383_hypothetical_protein.faa
318_TraB.faa
390_hypothetical_protein.faa
73_mph2.faa
70_tnpD.faa
13_hypothetical_protein.faa
288_resolvase.faa
286_streptomycin_phospho...faa
638_ccgAII.faa
608_tetB.faa
384_hypothetical_protein.faa
163_unknown.faa
294_hypothetical_protein.faa
629_nuc.faa
630_fipA.faa
435_ampR.faa
296_hypothetical_protein.faa
420_hypothetical_protein.faa
616_traL.faa
528_MAK2.40.faa
348_group_II_intron-enco...faa
71_mel.faa
318_TraB.faa
625_traE.faa
413_TraA.faa
295_hypothetical_protein.faa
649_ardK.faa
321_arsenical_pump-drivi...faa
603_ecoRII.faa
471_putative_relaxase-he...faa
225_delta-FipA.faa
416_TraL.faa
633_traK.faa
174_arsD.faa
444_FosA.faa
341_hypothetical_protein.faa
744_tnp.faa
34_methyl-accepting_che...faa
60_ant3-9.faa
240_putative_invertase-r...faa
602_resP.faa
159_intI1.faa
10_mrx.faa
640_ardA.faa
619_traA.faa
547_insA.faa
368_hypothetical_protein.faa
605_hypothetical_protein.faa
391_hypothetical_protein.faa
268_hypothetical_protein.faa
246_hypothetical_protein.faa
230_hypothetical_protein.faa
382_conserved_hypothetic...faa
613_kikA.faa
353_S-formylglutathione_...faa
501_yahA.faa
644_ardR.faa
226_TnpA.faa
643_ccgEIII.faa
238_TnpA.faa
495_MAK2.05.faa
163_unknown.faa
61_linF.faa
621_traC.faa
743_putative_IS91_ORF2.faa
613_kikA.faa
635_stbB.faa
302_conserved_hypothetic...faa
348_group_II_intron-enco...faa
264_hypothetical_protein.faa
298_conserved_hypothetic...faa
295_hypothetical_protein.faa
628_traG.faa
236_putative_DeoR-type_t...faa
448_hypothetical_protein.faa
338_InsB.faa
548_insB.faa
61_linF.faa
634_stbA.faa
243_TnpM.faa
611_strB.faa
297_hypothetical_protein.faa
241_PilT.faa
176_arsB.faa
605_hypothetical_protein.faa
159_intI1.faa
497_ble.faa
523_pecM.faa
71_mel.faa
200_AacA4.faa
35_tnpA.faa
380_hypothetical_protein.faa
160_oxa2.faa
376_hypothetical_protein.faa
289_beta-lactamase.faa
381_hypothetical_protein.faa
402_conserved_hypothetic...faa
234_hypothetical_protein.faa
601_repA.faa
36_beta-lactamase_CTX-M...faa
602_resP.faa
365_NADH_dehydrogenase-_...faa
615_korB.faa
744_tnp.faa
60_ant3-9.faa
630_fipA.faa
34_methyl-accepting_che...faa
445_tnpA.faa
236_putative_DeoR-type_t...faa
70_tnpD.faa
384_hypothetical_protein.faa
298_conserved_hypothetic...faa
308_conserved_hypothetic...faa
72_mph1.faa
327_TraB.faa
68_armA.faa
402_conserved_hypothetic...faa
171_unknown.faa
615_korB.faa
352_resolvase.faa
304_transposase-_IS4_fam...faa
646_mucA.faa
648_mpr.faa
232_hypothetical_protein.faa
401_protein_of_unknown_f...faa
641_ccgC.faa
338_InsB.faa
231_hypothetical_protein.faa
606_type_IV_restriction_...faa
396_TraK.faa
166_unknown.faa
8_tnpA.faa
362_group_II_intron-enco...faa
250_putative_mobilizatio...faa
65_sul1.faa
68_armA.faa
642_ccgD.faa
628_traG.faa
13_hypothetical_protein.faa
226_TnpA.faa
73_mph2.faa
632_traJ.faa
617_korA.faa
253_transposition_modula...faa
87_traA.faa
288_resolvase.faa
380_hypothetical_protein.faa
304_transposase-_IS4_fam...faa
623_traD.faa
367_ISEc8_transposase.faa
355_S--hydroxymethyl-glu...faa
268_hypothetical_protein.faa
299_site-specific_recomb...faa
301_putative_transposase.faa
11_blaCTX-M-1.faa
647_mucB.faa
618_traM.faa
636_stbC.faa
609_tetR.faa
645_ardB.faa
640_ardA.faa
448_hypothetical_protein.faa
501_yahA.faa
627_traF.faa
622_eex.faa
368_hypothetical_protein.faa
366_excinuclease_ABC-_A_...faa
9_mphA.faa
351_putative_transposase...faa
616_traL.faa
408_hypothetical_protein.faa
401_protein_of_unknown_f...faa
307_hypothetical_protein.faa
601_repA.faa
200_AacA4.faa
644_ardR.faa
355_S--hydroxymethyl-glu...faa
614_hypothetical_protein.faa
282_hypothetical_protein.faa
604_dcm.faa
379_hypothetical_protein.faa
74_hypothetical_protein.faa
198_TnpA.faa
365_NADH_dehydrogenase-_...faa
66_hypothetical_protein.faa
281_phage_integrase_fami...faa
173_arsR.faa
624_traN.faa
350_transposase.faa
364_conserved_hypothetic...faa
417_hypothetical_protein.faa
619_traA.faa
363_putative_transposase...faa
528_MAK2.40.faa
296_hypothetical_protein.faa
631_traI.faa
168_unknown.faa
69_hypothetical_protein.faa
435_ampR.faa
633_traK.faa
413_TraA.faa
607_tetC.faa
497_ble.faa
36_beta-lactamase_CTX-M...faa
74_hypothetical_protein.faa
523_pecM.faa
231_hypothetical_protein.faa
230_hypothetical_protein.faa
8_tnpA.faa
228_truncated_TnpA.faa
351_putative_transposase...faa
400_DNA_polymerase-_beta...faa
64_qacEdelta1.faa
547_insA.faa
233_YdaA.faa
66_hypothetical_protein.faa
160_oxa2.faa
349_transposase_InsF.faa
327_TraB.faa
354_glyoxalase-bleomycin...faa
608_tetB.faa
264_hypothetical_protein.faa
646_mucA.faa
498_sph.faa
201_VIM-1.faa
639_ccgAI.faa
649_ardK.faa
87_traA.faa
408_hypothetical_protein.faa
438_unknown.faa
307_hypothetical_protein.faa
177_arsC.faa
400_DNA_polymerase-_beta...faa
607_tetC.faa
495_MAK2.05.faa
245_dfrA14.faa
632_traJ.faa
626_traO.faa
253_transposition_modula...faa
172_unknown.faa
611_strB.faa
293_hypothetical_protein.faa
242_TnpA.faa
606_type_IV_restriction_...faa
617_korA.faa
445_tnpA.faa
255_hypothetical_protein.faa
235_hypothetical_protein.faa
557_insF.faa
354_glyoxalase-bleomycin...faa
620_traB.faa
362_group_II_intron-enco...faa
622_eex.faa
# intersection size = 180 clusters
2 changes: 1 addition & 1 deletion sample_intersection/pangenome_matrix_t0.tabed
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Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
Genome 7_transposase_A 8_tnpA 9_mphA 10_mrx 11_blaCTX_M_1 13_hypothetical_protein 34_methyl_accepting_che.. 35_tnpA 36_beta_lactamase_CTX_M.. 60_ant39 61_linF 64_qacEdelta1 65_sul1 66_hypothetical_protein 68_armA 69_hypothetical_protein 70_tnpD 71_mel 72_mph1 73_mph2 74_hypothetical_protein 87_traA 159_intI1 160_oxa2 163_unknown 166_unknown 168_unknown 171_unknown 172_unknown 173_arsR 174_arsD 175_arsA 176_arsB 177_arsC 198_TnpA 200_AacA4 201_VIM_1 225_delta_FipA 226_TnpA 228_truncated_TnpA 229_QnrS1 230_hypothetical_protein 231_hypothetical_protein 232_hypothetical_protein 233_YdaA 234_hypothetical_protein 235_hypothetical_protein 236_putative_DeoR_type_t.. 238_TnpA 240_putative_invertase_r.. 241_PilT 242_TnpA 243_TnpM 245_dfrA14 246_hypothetical_protein 250_putative_mobilizatio.. 253_transposition_modula.. 255_hypothetical_protein 264_hypothetical_protein 268_hypothetical_protein 280_transposase 281_phage_integrase_fami.. 282_hypothetical_protein 286_streptomycin_phospho.. 288_resolvase 289_beta_lactamase 293_hypothetical_protein 294_hypothetical_protein 295_hypothetical_protein 296_hypothetical_protein 297_hypothetical_protein 298_conserved_hypothetic.. 299_site_specific_recomb.. 301_putative_transposase 302_conserved_hypothetic.. 304_transposase_IS4_fam.. 307_hypothetical_protein 308_conserved_hypothetic.. 318_TraB 321_arsenical_pump_drivi.. 327_TraB 338_InsB 341_hypothetical_protein 348_group_II_intron_enco.. 349_transposase_InsF 350_transposase 351_putative_transposase.. 352_resolvase 353_S_formylglutathione_.. 354_glyoxalase_bleomycin.. 355_S_hydroxymethyl_glu.. 362_group_II_intron_enco.. 363_putative_transposase.. 364_conserved_hypothetic.. 365_NADH_dehydrogenase_.. 366_excinuclease_ABC_A_.. 367_ISEc8_transposase 368_hypothetical_protein 376_hypothetical_protein 379_hypothetical_protein 380_hypothetical_protein 381_hypothetical_protein 382_conserved_hypothetic.. 383_hypothetical_protein 384_hypothetical_protein 390_hypothetical_protein 391_hypothetical_protein 396_TraK 400_DNA_polymerase_beta.. 401_protein_of_unknown_f.. 402_conserved_hypothetic.. 408_hypothetical_protein 413_TraA 416_TraL 417_hypothetical_protein 420_hypothetical_protein 435_ampR 438_unknown 444_FosA 445_tnpA 448_hypothetical_protein 471_putative_relaxase_he.. 495_MAK2.05 497_ble 498_sph 501_yahA 523_pecM 528_MAK2.40 547_insA 548_insB 557_insF 601_repA 602_resP 603_ecoRII 604_dcm 605_hypothetical_protein 606_type_IV_restriction_.. 607_tetC 608_tetB 609_tetR 611_strB 613_kikA 614_hypothetical_protein 615_korB 616_traL 617_korA 618_traM 619_traA 620_traB 621_traC 622_eex 623_traD 624_traN 625_traE 626_traO 627_traF 628_traG 629_nuc 630_fipA 631_traI 632_traJ 633_traK 634_stbA 635_stbB 636_stbC 637_hypothetical_protein 638_ccgAII 639_ccgAI 640_ardA 641_ccgC 642_ccgD 643_ccgEIII 644_ardR 645_ardB 646_mucA 647_mucB 648_mpr 649_ardK 743_putative_IS91_ORF2 744_tnp
Genome 7_transposase_A 8_tnpA 9_mphA 10_mrx 11_blaCTX_M_1 13_hypothetical_protein 34_methyl_accepting_che.. 35_tnpA 36_beta_lactamase_CTX_M.. 60_ant3_9 61_linF 64_qacEdelta1 65_sul1 66_hypothetical_protein 68_armA 69_hypothetical_protein 70_tnpD 71_mel 72_mph1 73_mph2 74_hypothetical_protein 87_traA 159_intI1 160_oxa2 163_unknown 166_unknown 168_unknown 171_unknown 172_unknown 173_arsR 174_arsD 175_arsA 176_arsB 177_arsC 198_TnpA 200_AacA4 201_VIM_1 225_delta_FipA 226_TnpA 228_truncated_TnpA 229_QnrS1 230_hypothetical_protein 231_hypothetical_protein 232_hypothetical_protein 233_YdaA 234_hypothetical_protein 235_hypothetical_protein 236_putative_DeoR_type_t.. 238_TnpA 240_putative_invertase_r.. 241_PilT 242_TnpA 243_TnpM 245_dfrA14 246_hypothetical_protein 250_putative_mobilizatio.. 253_transposition_modula.. 255_hypothetical_protein 264_hypothetical_protein 268_hypothetical_protein 280_transposase 281_phage_integrase_fami.. 282_hypothetical_protein 286_streptomycin_phospho.. 288_resolvase 289_beta_lactamase 293_hypothetical_protein 294_hypothetical_protein 295_hypothetical_protein 296_hypothetical_protein 297_hypothetical_protein 298_conserved_hypothetic.. 299_site_specific_recomb.. 301_putative_transposase 302_conserved_hypothetic.. 304_transposase_IS4_fam.. 307_hypothetical_protein 308_conserved_hypothetic.. 318_TraB 321_arsenical_pump_drivi.. 327_TraB 338_InsB 341_hypothetical_protein 348_group_II_intron_enco.. 349_transposase_InsF 350_transposase 351_putative_transposase.. 352_resolvase 353_S_formylglutathione_.. 354_glyoxalase_bleomycin.. 355_S_hydroxymethyl_glu.. 362_group_II_intron_enco.. 363_putative_transposase.. 364_conserved_hypothetic.. 365_NADH_dehydrogenase_.. 366_excinuclease_ABC_A_.. 367_ISEc8_transposase 368_hypothetical_protein 376_hypothetical_protein 379_hypothetical_protein 380_hypothetical_protein 381_hypothetical_protein 382_conserved_hypothetic.. 383_hypothetical_protein 384_hypothetical_protein 390_hypothetical_protein 391_hypothetical_protein 396_TraK 400_DNA_polymerase_beta.. 401_protein_of_unknown_f.. 402_conserved_hypothetic.. 408_hypothetical_protein 413_TraA 416_TraL 417_hypothetical_protein 420_hypothetical_protein 435_ampR 438_unknown 444_FosA 445_tnpA 448_hypothetical_protein 471_putative_relaxase_he.. 495_MAK2.05 497_ble 498_sph 501_yahA 523_pecM 528_MAK2.40 547_insA 548_insB 557_insF 601_repA 602_resP 603_ecoRII 604_dcm 605_hypothetical_protein 606_type_IV_restriction_.. 607_tetC 608_tetB 609_tetR 611_strB 613_kikA 614_hypothetical_protein 615_korB 616_traL 617_korA 618_traM 619_traA 620_traB 621_traC 622_eex 623_traD 624_traN 625_traE 626_traO 627_traF 628_traG 629_nuc 630_fipA 631_traI 632_traJ 633_traK 634_stbA 635_stbB 636_stbC 637_hypothetical_protein 638_ccgAII 639_ccgAI 640_ardA 641_ccgC 642_ccgD 643_ccgEIII 644_ardR 645_ardB 646_mucA 647_mucB 648_mpr 649_ardK 743_putative_IS91_ORF2 744_tnp
E_coli_ST131_plasmid_pKC394.gb 1 2 1 1 1 1 1 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 1 1 1 2 0 0 0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 0 0
E_coli_plasmid_pMUR050.gb 0 0 0 0 0 0 0 1 0 2 1 1 1 1 1 1 1 1 1 1 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 1 1 1 0 0 0 0 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0 0 1 1 1 1 1 1 1 0 0
IncN_plasmid_R46.gb 0 0 0 0 0 0 0 0 0 1 0 1 1 0 0 0 0 0 0 0 0 1 1 2 1 1 1 1 1 1 1 1 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 0 1 1 0 1 1 0 1 1 1 1 1 1 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 0 0
Expand Down
Binary file modified sample_intersection/pangenome_matrix_t0__shell.pdf
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Binary file modified sample_intersection/pangenome_matrix_t0__shell_circle.pdf
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22 changes: 11 additions & 11 deletions sample_intersection/unique_UnculturedbacteriumplasmidpRSB203_f0_0taxa_algCOG_e0_.venn_t0.txt
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Original file line number Diff line number Diff line change
@@ -1,16 +1,16 @@
247_TnpA.faa
204_hypothetical_protein.faa
33_tnpA.faa
496_aph.faa
526_tnpA.faa
335_conserved_hypothetic...faa
527_tnpR.faa
305_transposase.faa
178_recombinase.faa
300_transposase.faa
279_transposase.faa
57_transposase.faa
214_hypothetical_protein.faa
305_transposase.faa
377_hypothetical_protein.faa
612_hypothetical_protein.faa
527_tnpR.faa
496_aph.faa
247_TnpA.faa
610_strA.faa
57_transposase.faa
335_conserved_hypothetic...faa
33_tnpA.faa
204_hypothetical_protein.faa
377_hypothetical_protein.faa
526_tnpA.faa
214_hypothetical_protein.faa
14 changes: 7 additions & 7 deletions ...le_intersection/unique_UnculturedbacteriumplasmidpRSB203_f0_0taxa_algOMCL_e0_.venn_t0.txt
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Original file line number Diff line number Diff line change
@@ -1,13 +1,13 @@
300_transposase.faa
450_tnpA.faa
319_transposase.faa
279_transposase.faa
204_hypothetical_protein.faa
612_hypothetical_protein.faa
205_hypothetical_protein.faa
33_tnpA.faa
178_recombinase.faa
319_transposase.faa
305_transposase.faa
450_tnpA.faa
610_strA.faa
385_hypothetical_protein.faa
300_transposase.faa
214_hypothetical_protein.faa
178_recombinase.faa
305_transposase.faa
205_hypothetical_protein.faa
33_tnpA.faa
Binary file modified sample_intersection/venn_t0.pdf
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