Coverage for test_gffpandas.py : 100%

Hot-keys on this page
r m x p toggle line displays
j k next/prev highlighted chunk
0 (zero) top of page
1 (one) first highlighted chunk
#!/usr/bin/env python # -*- coding: utf-8 -*-
['NC_016810.1', 'RefSeq', 'region', 1, 4000, '.', '+', '.', 'Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001'], ['NC_016810.1', 'RefSeq', 'CDS', 13, 235, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ['NC_016810.1', 'RefSeq', 'CDS', 341, 523, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 1, 600, '.', '-', '.', 'ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003'], ['NC_016810.1', 'RefSeq', 'CDS', 21, 345, '.', '-', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene3;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 41, 255, '.', '+', '.', 'ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004'], ['NC_016810.1', 'RefSeq', 'CDS', 61, 195, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005'], ['NC_016810.1', 'RefSeq', 'CDS', 34, 335, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene5;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"])
'##sequence-region NC_016810.1 1 20\n')
'NC_016810.1,RefSeq,region,1,4000,.,+,.,Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344\n' 'NC_016810.1,RefSeq,gene,1,20,.,+,.,ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001\n' 'NC_016810.1,RefSeq,CDS,13,235,.,+,0,Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1,RefSeq,gene,1,20,.,+,.,ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002\n' 'NC_016810.1,RefSeq,CDS,341,523,.,+,0,Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1,RefSeq,gene,1,600,.,-,.,ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003\n' 'NC_016810.1,RefSeq,CDS,21,345,.,-,0,Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene3;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1,RefSeq,gene,41,255,.,+,.,ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004\n' 'NC_016810.1,RefSeq,CDS,61,195,.,+,0,Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1,RefSeq,gene,170,546,.,+,.,ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005\n' 'NC_016810.1,RefSeq,CDS,34,335,.,+,0,Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene5;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n')
'NC_016810.1\tRefSeq\tregion\t1\t4000\t.\t+\t.\tDbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344\n' 'NC_016810.1\tRefSeq\tgene\t1\t20\t.\t+\t.\tID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001\n' 'NC_016810.1\tRefSeq\tCDS\t13\t235\t.\t+\t0\tDbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1\tRefSeq\tgene\t1\t20\t.\t+\t.\tID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002\n' 'NC_016810.1\tRefSeq\tCDS\t341\t523\t.\t+\t0\tDbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1\tRefSeq\tgene\t1\t600\t.\t-\t.\tID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003\n' 'NC_016810.1\tRefSeq\tCDS\t21\t345\t.\t-\t0\tDbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene3;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1\tRefSeq\tgene\t41\t255\t.\t+\t.\tID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004\n' 'NC_016810.1\tRefSeq\tCDS\t61\t195\t.\t+\t0\tDbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1\tRefSeq\tgene\t170\t546\t.\t+\t.\tID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005\n' 'NC_016810.1\tRefSeq\tCDS\t34\t335\t.\t+\t0\tDbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene5;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n')
'##sequence-region NC_016810.1 1 20\n' 'NC_016810.1 RefSeq region 1 4000 . + . Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344\n' 'NC_016810.1 RefSeq gene 1 20 . + . ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001\n' 'NC_016810.1 RefSeq CDS 13 235 . + 0 Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1 RefSeq gene 1 20 . + . ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002\n' 'NC_016810.1 RefSeq CDS 341 523 . + 0 Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1 RefSeq gene 1 600 . - . ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003\n' 'NC_016810.1 RefSeq CDS 21 345 . - 0 Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene3;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1 RefSeq gene 41 255 . + . ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004\n' 'NC_016810.1 RefSeq CDS 61 195 . + 0 Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n' 'NC_016810.1 RefSeq gene 170 546 . + . ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005\n' 'NC_016810.1 RefSeq CDS 34 335 . + 0 Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene5;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11\n')
['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001'], ['NC_016810.1', 'RefSeq', 'CDS', 13, 235, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ['NC_016810.1', 'RefSeq', 'CDS', 341, 523, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 41, 255, '.', '+', '.', 'ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004'], ['NC_016810.1', 'RefSeq', 'CDS', 61, 195, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[1, 2, 3, 4, 7, 8])
['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ['NC_016810.1', 'RefSeq', 'gene', 1, 600, '.', '-', '.', 'ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003'], ['NC_016810.1', 'RefSeq', 'gene', 41, 255, '.', '+', '.', 'ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[1, 3, 5, 7, 9])
['NC_016810.1', 'RefSeq', 'CDS', 341, 523, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[4])
['NC_016810.1', 'RefSeq', 'region', 1, 4000, '.', '+', '.', 'Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344', 'taxon:216597', 'id0', None, None, 'Src', None, 'genomic', None, 'genomic DNA', None, None, 'Typhimurium', 'SL1344', None], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001', None, 'gene1', 'thrL', None, 'Gene', 'thrL', None, 'SL1344_0001', None, None, None, None, None, None], ['NC_016810.1', 'RefSeq', 'CDS', 13, 235, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11', 'UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1', 'cds0', 'YP_005179941.1', 'gene1', 'CDS', None, None, None, None, 'thr operon leader peptide', 'YP_005179941.1', None, None, '11'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002', None, 'gene2', 'thrA', None, 'Gene', 'thrA', None, 'SL1344_0002', None, None, None, None, None, None], ['NC_016810.1', 'RefSeq', 'CDS', 341, 523, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11', 'UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1', 'cds0', 'YP_005179941.1', 'gene2', 'CDS', None, None, None, None, 'thr operon leader peptide', 'YP_005179941.1', None, None, '11'], ['NC_016810.1', 'RefSeq', 'gene', 1, 600, '.', '-', '.', 'ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003', None, 'gene3', 'thrX', None, 'Gene', 'thrX', None, 'SL1344_0003', None, None, None, None, None, None], ['NC_016810.1', 'RefSeq', 'CDS', 21, 345, '.', '-', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene3;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11', 'UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1', 'cds0', 'YP_005179941.1', 'gene3', 'CDS', None, None, None, None, 'thr operon leader peptide', 'YP_005179941.1', None, None, '11'], ['NC_016810.1', 'RefSeq', 'gene', 41, 255, '.', '+', '.', 'ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004', None, 'gene4', 'thrB', None, 'Gene', 'thrB', None, 'SL1344_0004', None, None, None, None, None, None], ['NC_016810.1', 'RefSeq', 'CDS', 61, 195, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11', 'UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1', 'cds0', 'YP_005179941.1', 'gene4', 'CDS', None, None, None, None, 'thr operon leader peptide', 'YP_005179941.1', None, None, '11'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005', None, 'gene5', 'thrC', None, 'Gene', 'thrC', None, 'SL1344_0005', None, None, None, None, None, None], ['NC_016810.1', 'RefSeq', 'CDS', 34, 335, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene5;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11', 'UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1', 'cds0', 'YP_005179941.1', 'gene5', 'CDS', None, None, None, None, 'thr operon leader peptide', 'YP_005179941.1', None, None, '11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes", "Dbxref", "ID", "Name", "Parent", "gbkey", "gene", "genome", "locus_tag", "mol_type", "product", "protein_id", "serovar", "strain", "transl_table"])
'Maximal_bp_length': 599, 'Minimal_bp_length': 19, 'Counted_strands': strand_counts, 'Counted_feature_types': type_counts }
"end", "score", "strand", "phase", "attributes"], index=[])
['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[3])
['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ['NC_016810.1', 'RefSeq', 'gene', 1, 600, '.', '-', '.', 'ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003'], ['NC_016810.1', 'RefSeq', 'gene', 41, 255, '.', '+', '.', 'ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[1, 3, 5, 7, 9])
['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[1, 3])
['NC_016810.1', 'RefSeq', 'region', 1, 4000, '.', '+', '.', 'Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344'], ['NC_016810.1', 'RefSeq', 'CDS', 13, 235, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene1;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 41, 255, '.', '+', '.', 'ID=gene4;Name=thrB;gbkey=Gene;gene=thrB;locus_tag=SL1344_0004'], ['NC_016810.1', 'RefSeq', 'CDS', 61, 195, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene4;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005'], ['NC_016810.1', 'RefSeq', 'CDS', 34, 335, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene5;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[0, 2, 7, 8, 9, 10])
['NC_016810.1', 'RefSeq', 'gene', 1, 600, '.', '-', '.', 'ID=gene3;Name=thrX;gbkey=Gene;gene=thrX;locus_tag=SL1344_0003'], ['NC_016810.1', 'RefSeq', 'CDS', 21, 345, '.', '-', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene3;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[5, 6])
['NC_016810.1', 'RefSeq', 'region', 1, 4000, '.', '+', '.', 'Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[0, 9])
['NC_016810.1', 'RefSeq', 'region', 1, 4000, '.', '+', '.', 'Dbxref=taxon:216597;ID=id0;gbkey=Src;genome=genomic;mol_type=genomic DNA;serovar=Typhimurium;strain=SL1344'], ['NC_016810.1', 'RefSeq', 'CDS', 341, 523, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ['NC_016810.1', 'RefSeq', 'gene', 170, 546, '.', '+', '.', 'ID=gene5;Name=thrC;gbkey=Gene;gene=thrC;locus_tag=SL1344_0005'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[0, 4, 9])
['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene1;Name=thrL;gbkey=Gene;gene=thrL;locus_tag=SL1344_0001'], ['NC_016810.1', 'RefSeq', 'gene', 1, 20, '.', '+', '.', 'ID=gene2;Name=thrA;gbkey=Gene;gene=thrA;locus_tag=SL1344_0002'], ['NC_016810.1', 'RefSeq', 'CDS', 341, 523, '.', '+', '0', 'Dbxref=UniProtKB%252FTrEMBL:E1W7M4%2CGenbank:YP_005179941.1;ID=cds0;Name=YP_005179941.1;Parent=gene2;gbkey=CDS;product=thr operon leader peptide;protein_id=YP_005179941.1;transl_table=11'], ], columns=["seq_id", "source", "type", "start", "end", "score", "strand", "phase", "attributes"], index=[1, 3, 4])
compare_filter_feature_df)
'SL1344_0006') compare_get_feature_by_attribute) compare_get_feature_by_attribute2)
written_attribute_df)
# assert stats_dict == compare_stats_dic
type='gene', start=1, end=40, strand='+') start=40, end=300, strand='+') start=170, end=171, strand='-') start=525, end=545, strand='+') start=341, end=500, strand='+') start=40, end=300, strand='+', complement=True) start=1, end=4000, strand='+', complement=True) compare_overlap_gene_1_40)
type='gene') type='CDS') |