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= Ahg899464

Length=201
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  ATCG00170.1 | Symbols: RPOC2 | DNA-directed RNA polymerase fami...   329    5e-90
  AT3G33004.1 | Symbols:  | pseudogene, DNA-directed RNA polymera...   248    1e-65


> ATCG00170.1 | Symbols: RPOC2 | DNA-directed RNA polymerase family 
protein | chrC:15938-20068 REVERSE LENGTH=4131
Length=4131

 Score =  329 bits (178),  Expect = 5e-90
 Identities = 191/197 (97%), Gaps = 1/197 (1%)
 Strand=Plus/Plus

Query  1     AAGTTTTCAAGAAACTGCTCGAGTTTTAGCAAAAGCCGCTCTTCGGGGTCGTATCGATTG  60
             |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct  3849  AAGTTTTCAAGAAACTGCTCGAGTTTTAGCAAAAGCTGCTCTTCGGGGTCGTATCGATTG  3908

Query  61    GTTGAAAGGCCTGAAAGAAAATGTTGTTTTA-GGGGGGTGATCCCCGCCGGGACCGGATT  119
             |||||||||||||||||||||||||||| || ||||||||||||||||||||||||||||
Sbjct  3909  GTTGAAAGGCCTGAAAGAAAATGTTGTTCTAGGGGGGGTGATCCCCGCCGGGACCGGATT  3968

Query  120   CAACAAAGGATTGGTGCATTGTTCACGGCAACATACCAACATTCTTTTGGaaaaaaaaaC  179
             ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct  3969  CAACAAAGGATTGGTGCATTGTTCACGGCAACATACCAACATTATTTTGGAAAAAAAAAC  4028

Query  180   AAATAATTTAGCTATAT  196
             ||| ||||||||| |||
Sbjct  4029  AAAGAATTTAGCTTTAT  4045


> AT3G33004.1 | Symbols:  | pseudogene, DNA-directed RNA polymerase 
beta-chain | chr3:13538953-13541488 REVERSE LENGTH=2536
Length=2536

 Score =  248 bits (134),  Expect = 1e-65
 Identities = 179/200 (90%), Gaps = 6/200 (3%)
 Strand=Plus/Plus

Query  1     AAGTTTTCAAGAAACTGCTCGAGTTTTAGCAAAAG---CCGCTCTTCGGGGTCGTATCGA  57
             |||||||||| |||||||||||||||||| |||||     ||||||||||||| ||||||
Sbjct  2215  AAGTTTTCAATAAACTGCTCGAGTTTTAGAAAAAGTTTTTGCTCTTCGGGGTCATATCGA  2274

Query  58    TTGGTTGAAAGGCCTGAAAGAAAATGTTGTTTTAGGGGGG-TGATCCCCGCCGGGACCGG  116
             || |||||||||||||||||||||||||||| |||||||| |||||||| |||||| | |
Sbjct  2275  TTTGTTGAAAGGCCTGAAAGAAAATGTTGTTCTAGGGGGGATGATCCCCACCGGGATCAG  2334

Query  117   ATTCAACAAAGGATTGGTGCATTGTTCACGGCAACATACCAACATTCTTTTGGaaaaaaa  176
             ||||||||||||| ||||| |||||||||||||||||||||||||| |||||||||||||
Sbjct  2335  ATTCAACAAAGGAATGGTGTATTGTTCACGGCAACATACCAACATTATTTTGGAAAAAAA  2394

Query  177   aaCAAATAATTTAGCTATAT  196
               |||| ||||||||| |||
Sbjct  2395  --CAAAGAATTTAGCTTTAT  2412



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 8953640478


  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