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= Ahg936994

Length=334
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  AT3G54890.1 | Symbols: LHCA1 | photosystem I light harvesting c...   167    7e-41
  AT1G31358.1 | Symbols: MIR404 | MIR404; miRNA | chr1:11230463-1...  80.5    9e-15


> AT3G54890.1 | Symbols: LHCA1 | photosystem I light harvesting 
complex gene 1 | chr3:20339504-20341103 REVERSE LENGTH=1109
Length=1109

 Score =  167 bits (90),  Expect = 7e-41
 Identities = 107/115 (93%), Gaps = 1/115 (1%)
 Strand=Plus/Minus

Query  138   TTCATCACTTAGAATTCAAGCTCACACGAGCAAATCGAGCACCAAGACAAAATACAGGTT  197
             ||||||||||||||||||||||||||||||||  |||| |||||||||||| ||||||  
Sbjct  1048  TTCATCACTTAGAATTCAAGCTCACACGAGCAT-TCGATCACCAAGACAAATTACAGGAA  990

Query  198   TTCACAAATCTGACTTTCATTACACACTGTTTTTGATACACATAAAGCTCATAAG  252
             |||||||||||| ||||||||||||| ||||||||||||||||||||||||||||
Sbjct  989   TTCACAAATCTGTCTTTCATTACACAGTGTTTTTGATACACATAAAGCTCATAAG  935


 Score =  145 bits (78),  Expect = 3e-34
 Identities = 82/84 (98%), Gaps = 0/84 (0%)
 Strand=Plus/Minus

Query  251  AGCGAGCATAGCCCATCTACAGTGGATGAGCTCTGATTCTTTGTATCTCTCAAGGTTCTC  310
            |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| |
Sbjct  472  AGCGAGCATAGCCCATCTACAGTGGATGAGCTCTGACTCTTTGTATCTCTCAAGGTTCGC  413

Query  311  TGGAACTTCTCCAAGTCCAAGTGG  334
            ||||||||||||||||||||||||
Sbjct  412  TGGAACTTCTCCAAGTCCAAGTGG  389


> AT1G31358.1 | Symbols: MIR404 | MIR404; miRNA | chr1:11230463-11230612 
REVERSE LENGTH=150
Length=150

 Score = 80.5 bits (43),  Expect = 9e-15
 Identities = 59/67 (88%), Gaps = 0/67 (0%)
 Strand=Plus/Plus

Query  66   GCGGCAGCGGCGGCGGCAAACACTACCGCAGGTTGTTGTTCGTTTCGTCACCGCTGCCGC  125
            |||| ||||| |||||||||||||||||||||||||||||||||| ||  |||| | |||
Sbjct  44   GCGGTAGCGGTGGCGGCAAACACTACCGCAGGTTGTTGTTCGTTTTGTTGCCGCAGACGC  103

Query  126  TGTCGCA  132
            || ||||
Sbjct  104  TGCCGCA  110



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 15583002190


  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