seqfmt

This document illustrates some common formats used for sequences representation.

EMBL

      ID   MMVASPHOS  standard; RNA; EST; 140 BP.
      AC   X97897;
      DE   M.musculus mRNA for protein homologous to
      DE   vasodilator-stimulated phosphoprotein
      SQ   Sequence 140 BP; 25 A; 58 C; 39 G; 17 T; 1 other;
           ttctcccaga agctgactct atggngaccc cgagagagac tgagcagaac      60
           ccccgcaccc ctgcacttcc aatcaggggc gccccgggag cactccccgt     120
           ccgccctccg cgcagccatg                                      140
      //

FASTA

      >MMVASPHOS
      ttctcccagaagctgactctatggngaccccgagagagactgagcagaacctggagccag
      ccccgcacccctgcacttccaatcaggggcgccccgggagcactccccgtggcgcgccgc
      ccgccctccgcgcagccatg

GCG

      !!NA_SEQUENCE 1.0
       (No documentation)
      dna1.txt  Length: 88  Nov 22, 2001 14:38  Type: N  Check: 3818  ..

             1  TAGTCGTAGT CGGAGCGATG CTGACGATGA CGATGACGAT CGTAGCTGAT

            51  CGATCGAGCT GATGCTGATC GAGCTAGCTG ATCGATCG

GDE

      #sample1
      TTCAAGAGAAACAGCGGCCAAGGAAAAGACTCGGCATGATTGTCCATAGCTTACAAAGCG
      #sample2
      TTCAAGAGAAACAGCGGCTGGGGGAAAGACTCGTCCTGATTGCCTGTAGATGGTAAAGCG

GENBANK

      LOCUS       HUMHBV1       130 bp    DNA         PRI     17-JUN-1993
      DEFINITION  Human DNA/endogenous Hepatitis B virus (HBV) DNA, left
                  host viral junction.
      ACCESSION   M15770
      BASE COUNT       32 a     43 c     29 g     26 t
      ORIGIN
            1 agcgggcagt gcagctgctt ggacagcagg ggtgtttctt caacccaggc
           61 ctcctgtcac aacaggccca ttcaattctg aacctgcaag ccaactccaa
          121 cctcttttcc cagggggaac caaaaaccct
      //

IG

      ; comment
      U03518
      AACCTGCGGAAGGATCATTACCGAGTGCGGGTCCTTTGGGCCCAACCTCCCATCCGTGTC
      TATTGTACCCTGTTGCTTCGGCGGGCCCGCCGCTTGTCGGCCGCCGGGGGGGCGCCTCTG
      TGAGTTGATTGAATGCAATCAGTTAAAACTTTCAACAATGGATCTCTTGGTTCCGGC1

NBRF

      >P1;CCHU
      cytochrome c [validated] - human
      MGDVEKGKKIFIMKCSQCHTVEKGGKHKTGPNLHGLFGRKTGQAPGYSYTAANKNKGIIW
      GEDTLMEYLENPKKYIPGTKMIFVGIKKKEERADLIAYLKKATNE*

PIR

      ENTRY          CCHU  #type complete
      TITLE          cytochrome c [validated] - human
      ACCESSIONS     A31764; A05676; I55192; A00001
      SUMMARY        #length 105  #molecular-weight 11749  #checksum 3247
      SEQUENCE
                      5        10        15        20        25        30
            1 M G D V E K G K K I F I M K C S Q C H T V E K G G K H K T G
           31 P N L H G L F G R K T G Q A P G Y S Y T A A N K N K G I I W
           61 G E D T L M E Y L E N P K K Y I P G T K M I F V G I K K K E
           91 E R A D L I A Y L K K A T N E
      ///

RAW

      ttctcccagaagctgactctatggngaccccgagagagactgagcagaacctggagccag
      ccccgcacccctgcacttccaatcaggggcgccccgggagcactccccgtggcgcgccgc
      ccgccctccgcgcagccatg

  Warning: This format cannot handle more than one sequence per file.

SWISSPROT

      ID   100K_RAT       STANDARD;      PRT;   149 AA.
      AC   Q62671;
      DE   100 kDa protein (EC 6.3.2.-).
      SQ   SEQUENCE   149 AA;  17004 MW;  D06484B8BC29112E CRC64;
           MMSARGDFLN YALSLMRSHN DEHSDVLPVL DVCSLKHVAY VFQALIYWIK
           PQLERKRTRE LLELGIDNED SEHENDDDTS QSATLNDKDD ESLPAETGQN
           SITIRPPDDQ HLPTANTCIS RLYVPLYSSK QILKQKLLLA IKTKNFGFV
      //