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= Ahg488801
Length=727
Score E
Sequences producing significant alignments: (Bits) Value
AT5G23420.1 | Symbols: HMGB6 | high-mobility group box 6 | chr5... 776 0.0
> AT5G23420.1 | Symbols: HMGB6 | high-mobility group box 6 | chr5:7888513-7890180
REVERSE LENGTH=994
Length=994
Score = 776 bits (420), Expect = 0.0
Identities = 564/629 (90%), Gaps = 28/629 (4%)
Strand=Plus/Plus
Query 1 AGAAATGGCTGGACCATCGACGACTTCAAACGCACCAAAGCAGAGGAAGAGAGTCGAAGC 60
||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 66 AGAAATGGCTGGACCATCGACAACTTCAAACGCACCAAAGCAGAGGAAGAGAGTCGAAGC 125
Query 61 AGAAACTAGCAGCAACAATACTTCTACTACCTTACGTCGCGCTAAAGATGGAAGCGCTTT 120
|| |||||||||||| ||||||||||||||||||||||||||||| |||||||||||
Sbjct 126 CGAGACTAGCAGCAAC---ACTTCTACTACCTTACGTCGCGCTAAAGACGGAAGCGCTTT 182
Query 121 CGCTCTCTGTGAAGGATGTAACAAGAGTGTAGCTGTAGCGCTTATAAGCATGCACAATTG 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 183 CGCTCTCTGTGAAGGATGTAACAAGAGTGTAGCTGTAGCGCTTATAAGCATGCACAATTG 242
Query 181 CAGTCTCGATGCTAAGATCAGA--G---CT-------CAAGTTGTGGAGACACAAGCAGA 228
|||||||||||||||||||||| | || |||||||||||||||||||||||
Sbjct 243 CAGTCTCGATGCTAAGATCAGAGTGAATCTCGAAGCACAAGTTGTGGAGACACAAGCAGA 302
Query 229 GGCTAAGAAGAAACCTGCAGAGAAGAAGAAGGCAACAGCTGATGGACCTAAGCCAAAGAG 288
|||||||||||| |||||||||||||||||| ||||| ||||||||||||||||||||||
Sbjct 303 GGCTAAGAAGAAGCCTGCAGAGAAGAAGAAGACAACATCTGATGGACCTAAGCCAAAGAG 362
Query 289 ACTTAAGAAAACCAATGATGAGAAAAAGAGCTCTTCTACTTCAAACAAGCCTAAACGACC 348
|||||||||||||||||||||||| |||||||| ||||||||||||||||| || |||||
Sbjct 363 ACTTAAGAAAACCAATGATGAGAAGAAGAGCTCGTCTACTTCAAACAAGCCCAAGCGACC 422
Query 349 ACTTACTGCTTTCTTTATCTTCATGAATGATTTCCGTAAAACTTTTAAAACAGAGCATAA 408
||||| ||||||||||||||||||| ||| ||||||||||| ||||| ||||||||||
Sbjct 423 TCTTACCGCTTTCTTTATCTTCATGAGTGACTTCCGTAAAACGTTTAAGTCAGAGCATAA 482
Query 409 TGGTTCATTTGCTAAGGATGCTGCAAAGATCGGTGGTGAAAAGTGGAAGTCTTTGACTGA 468
|||||| || ||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 483 TGGTTCGTTAGCTAAGGATGCTGCAAAGATCGGTGGTGAGAAGTGGAAGTCTTTGACTGA 542
Query 469 GGATGAGAAGAAAGTTTACCTAGATAAAGCTGCTGAACTAAAGGCAGAATATAACAAG-- 526
||| |||||||||||||| || ||||||||||||||||| |||||||| |||||||||
Sbjct 543 GGAAGAGAAGAAAGTTTATCTGGATAAAGCTGCTGAACTTAAGGCAGAGTATAACAAGTC 602
Query 527 A--G-AA-GCAAT----CTGATGATGTTGATGATGCTGGAGGAGAAAG-AAGCTGATGAT 577
| | || | ||| ||||||| | || || | || ||||||| | || ||||||||
Sbjct 603 ACTGGAAAGTAATGATGCTGATGAGGAAGAGGAAGATG-AGGAGAA-GCAATCTGATGAT 660
Query 578 GCTGATGAAGCTGAGGAGAAAGAAGTTGA 606
| |||||| |||||||||||| |||||||
Sbjct 661 GTTGATGATGCTGAGGAGAAACAAGTTGA 689
Score = 237 bits (128), Expect = 1e-61
Identities = 150/160 (94%), Gaps = 3/160 (2%)
Strand=Plus/Plus
Query 526 GAGAAGCAATCTGATGATGTTGATGATGCTGGAGGAGAAAGAAGCTGATGATGCTGATGA 585
|||||||||||||||||||||||||||||| ||||||||| ||| ||| |||| ||||||
Sbjct 643 GAGAAGCAATCTGATGATGTTGATGATGCT-GAGGAGAAACAAGTTGACGATGATGATGA 701
Query 586 AGCTGAGGAGAAAGAAGTTGAGAAAACAGATGATGAC-AGCAAAGAAGCTGAAGGTAAAG 644
|| ||||||||||||||||||||| |||||||||||| || ||||||||||| |||||||
Sbjct 702 AGTTGAGGAGAAAGAAGTTGAGAACACAGATGATGACAAG-AAAGAAGCTGAGGGTAAAG 760
Query 645 AAGAGGAGGAAGAAGAGATTTTGGATGACTACTAGAAATG 684
||||||||||||||||||||||||||||||||||||||||
Sbjct 761 AAGAGGAGGAAGAAGAGATTTTGGATGACTACTAGAAATG 800
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 35264371194
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