Dear all,
I am pretty new in bioinformatics. I want to ask, after I perform gene prediction using PRODIGAL, I got the following:
After I perform a local BLAST, how can I get something like the following?
In other words, after performing gene prediction, how to get a file which project the sequences as following?
I am pretty new in bioinformatics. I want to ask, after I perform gene prediction using PRODIGAL, I got the following:
PHP Code:
>final_001_R1_00001 # 2 # 898 # 1 # ID=1_1;partial=10;start_type=Edge;rbs_motif=None;rbs_spacer=None;gc_cont=0.644
ATGCCAGCAGGTCGATTGGCCAAGCCACTGGAGGCAATCGCGGGCCCGCTGCGGCGGTCA
TCGCCGGAGTCCGTTGACCGGATGCTCATCGGCTTGTGCGCGGTCATCTGGTTGGCGTTC
GTCGGGATGCTGGTCGGTGCCATCGTGGTGATCGCCGGAATGGGGGAGGACTCGGGTTCG
TCGGGGTCTTCGTGGGGCATCTACATCGTCATCGGGGTATCGCTGGCCGTCATCGTCGGT
GCCGTGCCGCTGTTGCTACGTGCCCGCAACACCGCTGCCCAGCGCACCTCGAAAACGGCC
CCTAAAACCAAGGGCGCCAATTCCTCCGGTGGGGCCACTGCGCCGTCTGGACCGCCTCCC
GCGGAGGCGTCGACCGAGAAGCTCAAGACCTTCGGTGGTCTCGCCGATCACGTGAGCCAT
GTTCCCAAGGACTACAACGGTCCTGGGTCACCCGCGTACCGGGCAGCCACCGAGGCGGCC
GCGAAGAGGGCGGTGGTCAACCGGCTGTGGTTGCGGGCCACGGTGGGGATCGCCGGCGCG
ATCGGCCTGGCACTGCTGGCGGTGGTGACCGGTACCTATCTGCTGGCAGTGGAAAGCGAC
ACCGCCGCCATCGTCGCGTTCGTCTTCGCCGGGGTGATCACCTGCGCGATGGGGGCCATT
CCATGGGTGACGCTCAAGAAGCTGCGCGAGCTCGGCTCGTCGGGGTCTTAG
After I perform a local BLAST, how can I get something like the following?
PHP Code:
>final_001_R1_00001 hypothetical protein
ATGCCAGCAGGTCGATTGGCCAAGCCACTGGAGGCAATCGCGGGCCCGCTGCGGCGGTCA
TCGCCGGAGTCCGTTGACCGGATGCTCATCGGCTTGTGCGCGGTCATCTGGTTGGCGTTC
GTCGGGATGCTGGTCGGTGCCATCGTGGTGATCGCCGGAATGGGGGAGGACTCGGGTTCG
TCGGGGTCTTCGTGGGGCATCTACATCGTCATCGGGGTATCGCTGGCCGTCATCGTCGGT
GCCGTGCCGCTGTTGCTACGTGCCCGCAACACCGCTGCCCAGCGCACCTCGAAAACGGCC
CCTAAAACCAAGGGCGCCAATTCCTCCGGTGGGGCCACTGCGCCGTCTGGACCGCCTCCC
GCGGAGGCGTCGACCGAGAAGCTCAAGACCTTCGGTGGTCTCGCCGATCACGTGAGCCAT
GTTCCCAAGGACTACAACGGTCCTGGGTCACCCGCGTACCGGGCAGCCACCGAGGCGGCC
GCGAAGAGGGCGGTGGTCAACCGGCTGTGGTTGCGGGCCACGGTGGGGATCGCCGGCGCG
ATCGGCCTGGCACTGCTGGCGGTGGTGACCGGTACCTATCTGCTGGCAGTGGAAAGCGAC
ACCGCCGCCATCGTCGCGTTCGTCTTCGCCGGGGTGATCACCTGCGCGATGGGGGCCATT
CCATGGGTGACGCTCAAGAAGCTGCGCGAGCTCGGCTCGTCGGGGTCTTAG
PHP Code:
>gene_0001 GENE_NAME_A
SEQUENCE...
>gene_0002 GENE_NAME_B
SEQUENCE...
>gene_0003 GENE_NAME_C
SEQUENCE...
>gene_0004 GENE_NAME_D
SEQUENCE...
>gene_0005 GENE_NAME_E
SEQUENCE...
>gene_0006 GENE_NAME_F
SEQUENCE...
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