Building a new DB, current time: 08/16/2019 17:54:45
New DB name:   /Users/frederic.foucault/Genomes/test/SeqSero/SeqSero_result_08_16_2019_17_54_449840376/GCA_000180375.1_ASM18037v1_genomic.fna_db
New DB title:  GCA_000180375.1_ASM18037v1_genomic.fna
Sequence type: Nucleotide
Keep MBits: T
Maximum file size: 1000000000B
Adding sequences from FASTA; added 415 sequences in 0.0396569 seconds.
$$: GCA_000180375.1_ASM18037v1_genomic.fna


Hits have been got

The gnd gene is splited on different contigs of your submitted sequence

Each alignment has one hsps

Loaded 4600498 letters in 415 sequences
Loaded 4600498 letters in 415 sequences


Building a new DB, current time: 08/16/2019 17:54:46
New DB name:   /Users/frederic.foucault/Genomes/test/SeqSero/SeqSero_result_08_16_2019_17_54_449840376/database/H_new_fliC_protein_database.fasta_db
New DB title:  database/H_new_fliC_protein_database.fasta
Sequence type: Protein
Keep MBits: T
Maximum file size: 1000000000B
Adding sequences from FASTA; added 472 sequences in 0.014966 seconds.


Building a new DB, current time: 08/16/2019 17:54:47
New DB name:   /Users/frederic.foucault/Genomes/test/SeqSero/SeqSero_result_08_16_2019_17_54_449840376/database/H_new_fljB_protein_database.fasta_db
New DB title:  database/H_new_fljB_protein_database.fasta
Sequence type: Protein
Keep MBits: T
Maximum file size: 1000000000B
Adding sequences from FASTA; added 189 sequences in 0.00700212 seconds.
GCA_000180375.1_ASM18037v1_genomic.fna
[u'd', u'j', u'b'] [999.579, 820.061, 722.62]
# GCA_000180375.1_ASM18037v1_genomic.fna $$$ Most possible H_fliC_type:  d__Salmonella.enterica__Typhi__AY353375__b,d,j:999.579 

$$$ bit_score: 999.579 

# GCA_000180375.1_ASM18037v1_genomic.fna $$$ Second possible H_fliC_type:  j__Salmonella.enterica__Typhi.var.j+__AY353433__b,d,j:820.061 

$$$ Second bit_score: 820.061 

# GCA_000180375.1_ASM18037v1_genomic.fna $$$ Third possible H_fliC_type:  b__Salmonella.enterica__IIIb.6,14:b:e,n,x,z15__AY353362__b,d,j:722.62 

$$$ Third bit_score: 722.62 

GCA_000180375.1_ASM18037v1_genomic.fna
$$$ No fljB in GCA_000180375.1_ASM18037v1_genomic.fna
$$_H:No fljB, only fliC, and its order: d__Salmonella.enterica__Typhi__AY353375__b,d,j:999.579 j__Salmonella.enterica__Typhi.var.j+__AY353433__b,d,j:820.061 b__Salmonella.enterica__IIIb.6,14:b:e,n,x,z15__AY353362__b,d,j:722.62