BLASTN 2.2.26+


Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.



Database: TAIR10_cdna_20110103_representative_gene_model_updated
           33,602 sequences; 51,074,197 total letters



Query= Ahg907336

Length=516
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  AT1G61160.1 | Symbols:  | CONTAINS InterPro DOMAIN/s: Retrotran...   625    1e-178


> AT1G61160.1 | Symbols:  | CONTAINS InterPro DOMAIN/s: Retrotransposon 
gag protein (InterPro:IPR005162); Has 30201 Blast hits 
to 17322 proteins in 780 species: Archae - 12; Bacteria 
- 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses 
- 0; Other Eukaryotes - 2996 (source: NCBI BLink). | chr1:22544868-22546230 
REVERSE LENGTH=632
Length=632

 Score =  625 bits (338),  Expect = 1e-178
 Identities = 445/493 (90%), Gaps = 21/493 (4%)
 Strand=Plus/Plus

Query  10   ACCGGGTCGATCAAGAAATCTGGTGACCCAAAAAACTTTGAGCGTC-CAGTGGCAGTCGG  68
            ||| |||||||||||| ||||||||| |||||||||||||||| || ||| || ||| ||
Sbjct  44   ACCAGGTCGATCAAGACATCTGGTGAACCAAAAAACTTTGAGC-TCACAGGGGTAGTTGG  102

Query  69   GGAGGAGGATCAGCCGCCCCGAGAAGCTTCTCAGGGCGGAGACTTCG-TCGAGTCTAAGC  127
            ||||||||||||||| ||||||||||||||| || |||||| ||||| | ||||||||||
Sbjct  103  GGAGGAGGATCAGCCACCCCGAGAAGCTTCTGAGCGCGGAGCCTTCGAT-GAGTCTAAGC  161

Query  128  CGGTGGACGTCAACATTGCCTTGAGCTGGGAA-CTCTTTGAGGTGAAGCAAGGAACAGAG  186
             ||| ||||||||||||||||||||||||||| | |||||||||||||||||||||||||
Sbjct  162  TGGTTGACGTCAACATTGCCTTGAGCTGGGAAGC-CTTTGAGGTGAAGCAAGGAACAGAG  220

Query  187  ACAGTGCGTGAGTATTATAAAGAGTTCCTTAAGAAGGTCAAGAACCTGGGAAGAGAGTTG  246
            |||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||
Sbjct  221  ACAGTGCGTGAGTATTATAACGAGTTCCTTAAGAAGGTCAAGAACCTCGGAAGAGAGTTG  280

Query  247  GAGGAAGAGGAGCTGGCGTGTCTGTTCCAGGAAGGGCTACTCGAGGAGTTGCACGAAGGG  306
            ||||||||| |||||||||||||||||||||||||||||| |||||||||||| ||||||
Sbjct  281  GAGGAAGAGCAGCTGGCGTGTCTGTTCCAGGAAGGGCTACGCGAGGAGTTGCAGGAAGGG  340

Query  307  GTACGTGCAGCGAACTGCGGATGGATCCTCAATTATGTGTCAGATGTAGTAGATGAAGCT  366
            ||| ||||||||||||||||||||||||| |||||||||||||||||||| |||||||||
Sbjct  341  GTATGTGCAGCGAACTGCGGATGGATCCTTAATTATGTGTCAGATGTAGTTGATGAAGCT  400

Query  367  GAGAAGGTAGAGGCCAAACTTAGAAGCACCAAGGAAAAGGTGCCGCTCGTGTCTAAGGAA  426
            |||||||||||||||||||||||||||| ||||||||||||||||||||||||| |||| 
Sbjct  401  GAGAAGGTAGAGGCCAAACTTAGAAGCATCAAGGAAAAGGTGCCGCTCGTGTCTGAGGAG  460

Query  427  CTTGCTGATGTTGA-T-------------TT-GGGCCAACCCGCATTCGAAGATGAGGTG  471
             |||| |||||||| |             || ||||| |||||||| |||||||||||||
Sbjct  461  TTTGCAGATGTTGACTGCGGACAAAGCAATTTGGGCCGACCCGCATCCGAAGATGAGGTG  520

Query  472  GAGAGCAAACCCT  484
            |||||||||||||
Sbjct  521  GAGAGCAAACCCT  533



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 24664966177


  Database: TAIR10_cdna_20110103_representative_gene_model_updated
    Posted date:  Sep 25, 2014  6:13 PM
  Number of letters in database: 51,074,197
  Number of sequences in database:  33,602



Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5