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= Ahg480649
Length=752
Score E
Sequences producing significant alignments: (Bits) Value
AT2G17560.1 | Symbols: HMGB4, NFD4, NFD04 | high mobility group... 946 0.0
> AT2G17560.1 | Symbols: HMGB4, NFD4, NFD04 | high mobility group
B4 | chr2:7642165-7643667 REVERSE LENGTH=833
Length=833
Score = 946 bits (512), Expect = 0.0
Identities = 688/765 (90%), Gaps = 44/765 (6%)
Strand=Plus/Plus
Query 1 TACTCACTCATACGCTCT-TCGTCAAACAAACaaaaaaaaCCCTACAGAAACTTCGACAT 59
|||||||||||||||||| |||||||||||| |||||||| |||| ||||||||||||||
Sbjct 39 TACTCACTCATACGCTCTCTCGTCAAACAAA-AAAAAAAAACCTAAAGAAACTTCGACAT 97
Query 60 GAAAGGCGGCGAATCCAAAGCTGAAGCTACGAGCACTGATCAGAGACTCAAAACCAGAGG 119
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 98 GAAAGGCGGCGAATCCAAAGCTGAAGCAACGAGCACTGATCAGAGACTCAAAACCAGAGG 157
Query 120 TAGAAAGCCTGGGAAGAAGACGAAGAAGGATCCAAATCAACCTAAGAGACCTCCAAGTGC 179
||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 158 TAGAAAGGCTGGGAAGAAGACGAAGAAGGATCCAAATCAACCTAAGAGACCTCCAAGTGC 217
Query 180 TTTCTTCGTCTTCCTTGAGGATTTCCGAAAAGAGTTTAACCTAGCGAATCCGAATAACAA 239
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 218 TTTCTTCGTCTTCCTTGAGGATTTCCGAAAAGAGTTTAACCTAGCGAATCCTAATAACAA 277
Query 240 ATCCGTCGCTACTGTTGGTAAGGCTGCTGGAGCTAGATGGAAGTCTATGACTGAGGAAGA 299
||||||||||||||||||||||||||||||||||||||||||| | |||||||| |||||
Sbjct 278 ATCCGTCGCTACTGTTGGTAAGGCTGCTGGAGCTAGATGGAAGGCAATGACTGATGAAGA 337
Query 300 TAAAGCGCCTTATGTCGCCAAGGCCGAGAGCAGAAAGACTGAATATCTTAAGACTATGCA 359
|||||| ||||| ||||| ||||| ||||||||||||||||||||| |||||| | ||||
Sbjct 338 TAAAGCTCCTTACGTCGCTAAGGCTGAGAGCAGAAAGACTGAATATATTAAGAATGTGCA 397
Query 360 ACAGTACAACATGAAACTGGCTAGTGGAACCAATAGAGGTGAAGAGGATGACTCTGACAA 419
|||||||||| ||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct 398 ACAGTACAACTTGAAACTGGCTAGTGGAACCAATAGAG---AAGAGGATGACTCTGACAA 454
Query 420 ATCCAAGTCTGAAGTGGATGAAGCAGGAAGCGAAGAGGTTTTTATGCAGGAGGAGGAAGA 479
||||||||||||||| |||||||||| ||||||||||| | |||| | || |
Sbjct 455 ATCCAAGTCTGAAGTTGATGAAGCAGTAAGCGAAGAGG-----AGGCAG-A--AG-A--- 502
Query 480 CGACGATTGAGGCTTTCTACTAGGTCTTGCGATTGACTTGACTCAGATTTGAGAATGTAA 539
|||||||||| || | ||| |||||||| |||||||||||||||||||||||||||||
Sbjct 503 CGACGATTGAAGCAT-CTA---GGTCTTGCTATTGACTTGACTCAGATTTGAGAATGTAA 558
Query 540 ACTTGCTTAGAG---ATGACCAAAAACTTT-AAAA--CTGGT-T--ATGCTTTGTGTTTG 590
|||||||||| | ||||||||||||||| |||| || | | ||||||||||||||
Sbjct 559 ACTTGCTTAG-GTTTATGACCAAAAACTTTTAAAAAACTCTTATTTATGCTTTGTGTTTG 617
Query 591 TGGTATTTGAACCTCATTTGCTACTTCAATGTGGTTTTAGGTCAGTTTGTAGGGATAATA 650
|| ||||||||||||||||||||| ||||||| ||||||||||||| |||||||||||||
Sbjct 618 TGATATTTGAACCTCATTTGCTACATCAATGTTGTTTTAGGTCAGTCTGTAGGGATAATA 677
Query 651 TCACTTGACTGCTATATTTTCCCC-ATTTCATT--GTTTTCACTAGAATTTATATGTTGT 707
||||||||||||||||||| |||| ||||| || ||||| ||||| ||| ||||||| |
Sbjct 678 TCACTTGACTGCTATATTT-CCCCTATTTCCTTATGTTTT-ACTAGTATTCATATGTTCT 735
Query 708 TCAACTTTGGATAAGTGGTATGGTTTTAGTATCAGCTTTATTTCT 752
||||||||| || || | | |||||||||||| |||||||||
Sbjct 736 TCAACTTTG--TA--TG--A-G-TTTTAGTATCAGTTTTATTTCT 772
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 36520224869
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