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= Ahg948509
Length=197
Score E
Sequences producing significant alignments: (Bits) Value
AT3G42190.1 | Symbols: | transposable element gene | chr3:1436... 99.0 1e-20
AT3G18900.2 | Symbols: | FUNCTIONS IN: molecular_function unkn... 56.5 8e-08
AT3G49980.1 | Symbols: | F-box and associated interaction doma... 56.5 8e-08
AT3G20690.1 | Symbols: | F-box and associated interaction doma... 56.5 8e-08
> AT3G42190.1 | Symbols: | transposable element gene | chr3:14364926-14371068
FORWARD LENGTH=2088
Length=2088
Score = 99.0 bits (53), Expect = 1e-20
Identities = 57/59 (97%), Gaps = 0/59 (0%)
Strand=Plus/Plus
Query 52 ATGGCTCATGCAAGGTTCTTGATGAAAGCGGCAATATCGACTATGACTCGCTTGGTAAA 110
||||||||||||||||||||||||||||||||||||||||| |||||| ||||||||||
Sbjct 1 ATGGCTCATGCAAGGTTCTTGATGAAAGCGGCAATATCGACAATGACTTGCTTGGTAAA 59
> AT3G18900.2 | Symbols: | FUNCTIONS IN: molecular_function unknown;
INVOLVED IN: biological_process unknown; LOCATED IN:
cellular_component unknown; EXPRESSED IN: synergid; CONTAINS
InterPro DOMAIN/s: F-box associated domain, type 1 (InterPro:IPR006527),
F-box associated interaction domain (InterPro:IPR017451),
Protein of unknown function DUF547 (InterPro:IPR006869);
BEST Arabidopsis thaliana protein match is: Protein
of unknown function, DUF547 (TAIR:AT5G66600.3). | chr3:6517181-6521019
FORWARD LENGTH=2500
Length=2500
Score = 56.5 bits (30), Expect = 8e-08
Identities = 30/30 (100%), Gaps = 0/30 (0%)
Strand=Plus/Plus
Query 112 GTGTGTCTTTGAAGGGAAATACTTACTGGT 141
||||||||||||||||||||||||||||||
Sbjct 1817 GTGTGTCTTTGAAGGGAAATACTTACTGGT 1846
> AT3G49980.1 | Symbols: | F-box and associated interaction domains-containing
protein | chr3:18530329-18531477 REVERSE LENGTH=1149
Length=1149
Score = 56.5 bits (30), Expect = 8e-08
Identities = 32/33 (97%), Gaps = 0/33 (0%)
Strand=Plus/Plus
Query 114 GTGTCTTTGAAGGGAAATACTTACTGGTGTGCT 146
|||||||||||||||||||||||||||| ||||
Sbjct 610 GTGTCTTTGAAGGGAAATACTTACTGGTTTGCT 642
> AT3G20690.1 | Symbols: | F-box and associated interaction domains-containing
protein | chr3:7231570-7232682 REVERSE LENGTH=1113
Length=1113
Score = 56.5 bits (30), Expect = 8e-08
Identities = 32/33 (97%), Gaps = 0/33 (0%)
Strand=Plus/Plus
Query 114 GTGTCTTTGAAGGGAAATACTTACTGGTGTGCT 146
|||||||||||||||||||||||||||| ||||
Sbjct 613 GTGTCTTTGAAGGGAAATACTTACTGGTATGCT 645
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 8752435074
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