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= Ahg892827

Length=588
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  AT5G08020.1 | Symbols: ATRPA70B, RPA70B | RPA70-kDa subunit B |...   326    2e-88


> AT5G08020.1 | Symbols: ATRPA70B, RPA70B | RPA70-kDa subunit B 
| chr5:2572107-2574879 FORWARD LENGTH=1815
Length=1815

 Score =  326 bits (176),  Expect = 2e-88
 Identities = 216/235 (92%), Gaps = 4/235 (2%)
 Strand=Plus/Plus

Query  350   GCTGCATAGTTGATGAACCCAATAAACTAAAATCAGAGGAAGGTGGAGTGAATGAGTTTC  409
             |||||| || |||||| | |||| | ||||||||||||||||||| ||||||||||||||
Sbjct  1577  GCTGCACAGCTGATGATCTCAATGATCTAAAATCAGAGGAAGGTGAAGTGAATGAGTTTC  1636

Query  410   AGACAAAGA-TGAAAGAAGTTATTTGGTCACCTCATCTCTTCCGGATCAGTGTTTCTCAG  468
             ||||||| | ||||||||| || ||||||| |||||||||||||||| ||||||||||||
Sbjct  1637  AGACAAA-ACTGAAAGAAGCTACTTGGTCATCTCATCTCTTCCGGATTAGTGTTTCTCAG  1695

Query  469   CAAGAGTATAACAGGGAGAAGAGACAGACGACT-ACTGTAAGAGGTGTTTCTCCAATTGA  527
             |||||||||||||| ||||||||||||| || | ||||||||||||||||||||||||||
Sbjct  1696  CAAGAGTATAACAGTGAGAAGAGACAGAGGA-TAACTGTAAGAGGTGTTTCTCCAATTGA  1754

Query  528   CTTTACTGCTGAAACAAGATTATTGCTCCAAGACATCTCCAAGAACAAGACATCT  582
             |||| ||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct  1755  CTTTGCTGCTGAAACAAGATTATTGCTCCAAGACATTTCCAAGAACAAGACATCT  1809


 Score =  272 bits (147),  Expect = 2e-72
 Identities = 238/278 (86%), Gaps = 22/278 (8%)
 Strand=Plus/Plus

Query  18    GTTTATCCCTGAAA-TAAAATTCAACTTTGTACCCACTGATAAGTTTGGATACATACGTA  76
             ||||| |||||||| | ||||||||||||||||||| |||| || |||| ||||||||| 
Sbjct  804   GTTTACCCCTGAAACT-AAATTCAACTTTGTACCCATTGATGAG-TTGGGTACATACGTG  861

Query  77    AATCAGAAAGACCTTTATTGTGTTATTTCATTCCAGATGTTATCGGTGTTGTTCAAATTG  136
             |||||||||||||             || |||   |||||||||||||||||||||| ||
Sbjct  862   AATCAGAAAGACC-------------TT-ATT---GATGTTATCGGTGTTGTTCAAAGTG  904

Query  137   TTTCTCCTAACAAT-AGCATTAGACGGAGGAATGACAATGAGTTGATCCCAAAGAGGGAT  195
             |||||||| || || ||||||||| ||| ||| ||||||||| ||||||||||||| |||
Sbjct  905   TTTCTCCT-ACCATGAGCATTAGAAGGAAGAACGACAATGAGATGATCCCAAAGAGAGAT  963

Query  196   ATAACTGTAGCCGATGAGACAAAGAAAACTGTTGTGGTGTCCCTTTGGAATGATCTACCA  255
             |||||| | || ||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct  964   ATAACTTTGGCTGATGAGACAAAGAAAACTGTTGTGGTGTCCCTTTGGAATGATCTAGCA  1023

Query  256   ACTGGCATAGGCCAAGAACTGCTAGACATGGCTGATAA  293
             |||||||| |||||||||||||| ||||||||||||||
Sbjct  1024  ACTGGCATTGGCCAAGAACTGCTGGACATGGCTGATAA  1061



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 28281824761


  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