how to extract DNA seq from a file which contain both protein and DNA

Question

[Neel]

Hi, i want to extract DNA seq from the file which contain both protein and DNA seq on the basis of header from 100 txt files. i tried this command also but it doesn't work, Please help me if anyone know anything.

> grep -A 1 -wFf list.txt allheader > newfile2.fas

P_aeruginosa_152962.fna.txt >CP069198.1_3523 # 3844084 # 3845187 # -1 # ID=1_3523;partial=00;start_type=ATG;rbs_motif=GGA;rbs_spacer=9bp;gc_cont=0.710  CP069198.1_3523 3844084 3845187 -       Perfect 690     726.087 MexJ    100.0   3003692 protein homolog model   n/a     n/a     macrolide antibiotic; tetracycline antibiotic; disinfecting agents and antiseptics      antibiotic efflux       resistance-nodulation-cell division (RND) antibiotic efflux pump        ATGTACCGCCATATCCCGCTCGTCGCCCTGTCCCTGTTTTCCTCCCTGTTCCTCGCCGCCTGCGGCAACGGCACGCCGCCGCCAGCCGCGGCGCGTCCGGCGATCGTCGTCCAGCCCCAGCCGGCGGGGGAGGTGAGCCAGGCCTTTCCCGGCGAGATCCGCGCCCGCCACGAGCCGGAGCTGGCCTTCCGCATCGGCGGCAAGGTCATCCGCCGGCTGGTGGAAGTCGGCGAGCGGGTAAAGAAGGACCAGCCCCTGGCCGAACTCGATCCCCAGGACGTGCGCCTGCAACTGGAGGCGGCGCGGGCCCAGGTCAGTGCCGCCGAGGCCAACTTGCAGACCGTGCGCGCCGAGTACCGGCGCTACCGCACCTTGCTCGACCGCAACCTGGTCAGCCATTCCCAGTTCGAGAACATCCAGAACAGCTACCGCGCCGGCGAGGCGCGGCTGAAGCAGATCCGCGCCGAATTCAACGTCGCCGACAACCAGGCCGGCTACGCCGTGCTGCGCTCGCCCCAGGATGGCGTGATCGCCAGCCGGCGCGTCGAGGTGGGCCAGGTGGTGGCGGCCGGACAGACGGTCTTCAGCCTGGCCGCCGACGGCGAACGCGAGGTGCTGATCGGCCTGCCGGAACACAGCTTCGAACGTTTCCGCATCGGCCAGCCGGTGTCGGTCGAACTCTGGTCGCAACGCGACAGACGCTTCGCCGGGCATATCCGCGAGCTCTCGCCCGCGGCCGATCCGCAATCGCGTACCTTCGCCGCCCGGGTGGCCTTCGACGACCGCGCGACTCCGGCCGAACTGGGCCAGAGCGCGCGGGTCTACGTCGCCGCCGCCGAGGCGGTGCCGTTATCGGTTCCCTTGTCGGCGCTGACCGCAGAGGCCGGCCAGGCGTTCGTCTGGGTGGTCGAGCCGGGCAGCTCGACCCTGCGCCGGCAGGCGGTGCGCACCGGTCCCTATGCCGAGGACCGGGTGCCGGTGCTCGAAGGCCTGAAGGCTGGCGACTGGGTGGTGGCCACCGGGGTCCAGGTGCTTCGCGAAGGGCAGCAGGTGCGTCCGATCGACCGGGCCAACCGCACGGTGAAACTGGCGGCCAAGGAGTAG        MYRHIPLVALSLFSSLFLAACGNGTPPPAAARPAIVVQPQPAGEVSQAFPGEIRARHEPELAFRIGGKVIRRLVEVGERVKKDQPLAELDPQDVRLQLEAARAQVSAAEANLQTVRAEYRRYRTLLDRNLVSHSQFENIQNSYRAGEARLKQIRAEFNVADNQAGYAVLRSPQDGVIASRRVEVGQVVAAGQTVFSLAADGEREVLIGLPEHSFERFRIGQPVSVELWSQRDRRFAGHIRELSPAADPQSRTFAARVAFDDRATPAELGQSARVYVAAAEAVPLSVPLSALTAEAGQAFVWVVEPGSSTLRRQAVRTGPYAEDRVPVLEGLKAGDWVVATGVQVLREGQQVRPIDRANRTVKLAAKE MYRHIPLVALSLFSSLFLAACGNGTPPPAAARPAIVVQPQPAGEVSQAFPGEIRARHEPELAFRIGGKVIRRLVEVGERVKKDQPLAELDPQDVRLQLEAARAQVSAAEANLQTVRAEYRRYRTLLDRNLVSHSQFENIQNSYRAGEARLKQIRAEFNVADNQAGYAVLRSPQDGVIASRRVEVGQVVAAGQTVFSLAADGEREVLIGLPEHSFERFRIGQPVSVELWSQRDRRFAGHIRELSPAADPQSRTFAARVAFDDRATPAELGQSARVYVAAAEAVPLSVPLSALTAEAGQAFVWVVEPGSSTLRRQAVRTGPYAEDRVPVLEGLKAGDWVVATGVQVLREGQQVRPIDRANRTVKLAAKE 100.00  gnl|BL_ORD_ID|2017|hsp_num:0    2205
enter code here

Thank you!

[cpad0112]

can you post an example input from one text file? Please don't post image of the data.

[Neel]

Hi, i didn't able to see any option regarding uploading a input file.

[GenoMax]

Appears to be a duplicate of How to extract ORF_ID(LR590472.1_162 ) from large number of txt file

@Neel if your file is tab separated then you should be able to use awk to extract columns you need. You can put a sample of the file at pastebin.com and provide a link.

[Neel]

Hi, here is link of input file on pastebin.com https://pastebin.com/FPmVS9ti

Thank you

[GenoMax]

I posted an answer in your last thread. Check that.