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= Ahg911478

Length=381
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  AT1G16740.1 | Symbols:  | Ribosomal protein L20 | chr1:5727690-...   627    3e-179
  AT4G09468.1 | Symbols:  | Pseudogene of AT1G16740; ribosomal pr...   243    1e-63 


> AT1G16740.1 | Symbols:  | Ribosomal protein L20 | chr1:5727690-5729080 
FORWARD LENGTH=594
Length=594

 Score =  627 bits (339),  Expect = 3e-179
 Identities = 367/381 (96%), Gaps = 0/381 (0%)
 Strand=Plus/Plus

Query  1    ATGAACAAGAAGGAGATCTTCAAGCTAGCGAAGGGTTTCAGAGGAAGAGCGAAGAATTGC  60
            |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||| 
Sbjct  84   ATGAACAAGAAGGAGATCTTCAAGCTAGCGAAGGGTTTCAGAGGAAGAGCTAAGAATTGT  143

Query  61   ATAAGAATTGCGAGAGAAAGAGTTGAGAAAGCTCTGCAGTACTCTTACAGAGATAGGCGC  120
            |||||||||||||| |||||||| ||||||||||||||||||||||||||||||||||||
Sbjct  144  ATAAGAATTGCGAGGGAAAGAGTCGAGAAAGCTCTGCAGTACTCTTACAGAGATAGGCGC  203

Query  121  AACAAGAAACGTGAGATGAGGGGTCTCTGGATCGAGCGCATCAACGCTGGTTCTCGTCAG  180
            |||||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||
Sbjct  204  AACAAGAAACGTGAGATGAGAGGTCTCTGGATCGAGCGCATCAACGCCGGTTCTCGTCAG  263

Query  181  CACGGTGTGAACTACGGTAATTTCATCCATGGACTGATGAAGGAGAACATCCAGCTGAAC  240
            ||||||||||||||||| || |||||||||||||||||||||||||||||||||||||||
Sbjct  264  CACGGTGTGAACTACGGGAACTTCATCCATGGACTGATGAAGGAGAACATCCAGCTGAAC  323

Query  241  CGCAAAGTCCTCTCTGAGTTATCTATGCATGAACCTTACAGCTTCAAAGCACTCGTGGAC  300
            ||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||| 
Sbjct  324  CGCAAAGTCCTCTCTGAGTTATCTATGCATGAACCTTACAGTTTCAAAGCACTTGTGGAT  383

Query  301  GTCTCCCGCAAGTCCTTCCCTGGAAACAAGAACATGGTCCAAGCATCTCGCAAAGTAGAC  360
            |||||||||||||| |||||||||||||||||| |||||||||||||||| |||||||||
Sbjct  384  GTCTCCCGCAAGTCGTTCCCTGGAAACAAGAACGTGGTCCAAGCATCTCGGAAAGTAGAC  443

Query  361  ATTTCATCCATCAATGCCTAG  381
            |||||||||||||||||||||
Sbjct  444  ATTTCATCCATCAATGCCTAG  464


> AT4G09468.1 | Symbols:  | Pseudogene of AT1G16740; ribosomal 
protein L20 family protein | chr4:6007688-6007885 FORWARD LENGTH=198
Length=198

 Score =  243 bits (131),  Expect = 1e-63
 Identities = 170/189 (90%), Gaps = 2/189 (1%)
 Strand=Plus/Plus

Query  1    ATGAACAAGAAGGAGATCTTCAAGCTAGCGAAGGGTTTCAGAGGAAGAGCGAAGAATTGC  60
            ||||||||||||||||||||||||||||| ||||||||||| |||||||| |||||||||
Sbjct  1    ATGAACAAGAAGGAGATCTTCAAGCTAGCCAAGGGTTTCAGGGGAAGAGCTAAGAATTGC  60

Query  61   ATAAGAATTGCGAGAGAAAGA-GTTGAGAAAGCTCTGCAGTACTCTTACAGAGATAGGCG  119
            |||||||| ||||| |||| | ||||| |||||||| || |||||||||||||| ||| |
Sbjct  61   ATAAGAATCGCGAGGGAAA-ATGTTGATAAAGCTCTACAATACTCTTACAGAGAAAGGTG  119

Query  120  CAACAAGAAACGTGAGATGAGGGGTCTCTGGATCGAGCGCATCAACGCTGGTTCTCGTCA  179
            |||||||||||||||||| |||||||| |||||||||| |||||| || ||||||| |||
Sbjct  120  CAACAAGAAACGTGAGATAAGGGGTCTTTGGATCGAGCTCATCAATGCCGGTTCTCTTCA  179

Query  180  GCACGGTGT  188
             ||||||||
Sbjct  180  ACACGGTGT  188



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 17945586393


  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