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= Ahg927846
Length=247
Score E
Sequences producing significant alignments: (Bits) Value
AT3G03720.1 | Symbols: CAT4 | cationic amino acid transporter 4... 228 2e-59
AT2G38980.1 | Symbols: | pseudogene, similar to fiber protein ... 204 4e-52
AT3G04184.1 | Symbols: | unknown protein; Has 30201 Blast hits... 163 6e-40
> AT3G03720.1 | Symbols: CAT4 | cationic amino acid transporter
4 | chr3:925612-930974 REVERSE LENGTH=2664
Length=2664
Score = 228 bits (123), Expect = 2e-59
Identities = 154/167 (92%), Gaps = 9/167 (5%)
Strand=Plus/Plus
Query 87 GGAGCTGGGACATGGATCAGGGTCTTGGTATGGCTACTTATTGGAAGCATGATCTATCTC 146
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||
Sbjct 2257 GGAGCTGGGACATGGATCAGGGTCTTGATATGGCTACTTATTGGAAGCATGATCTATATC 2316
Query 147 TTCTATGGCCGATCTCACAGCTTACTGAACAATGCGGTTTAC------AC---GACTTGT 197
|||||||||||||||||||||||||||||||||||||||||| || |||||||
Sbjct 2317 TTCTATGGCCGATCTCACAGCTTACTGAACAATGCGGTTTACGTTCCCACAATGACTTGT 2376
Query 198 ACCAGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGTTCAATGC 244
|| |||||||||||||||||||||||||||||||||||| |||||||
Sbjct 2377 ACGAGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGATCAATGC 2423
> AT2G38980.1 | Symbols: | pseudogene, similar to fiber protein
Fb12, blastp match of 53% identity and 1.2e-13 P-value to
GP|25992543|gb|AAN77151.1||AF531371 fiber protein Fb12 {Gossypium
barbadense} | chr2:16277009-16279354 REVERSE LENGTH=2346
Length=2346
Score = 204 bits (110), Expect = 4e-52
Identities = 151/169 (89%), Gaps = 9/169 (5%)
Strand=Plus/Plus
Query 88 GAGCTGGGACATGGATCAGGGTCTTGGTATGGCTACTTATTGGAAGCATGATCTATCTCT 147
|||||||||||||||||||||||||||||| ||||||||| ||||||||||||| |||||
Sbjct 2006 GAGCTGGGACATGGATCAGGGTCTTGGTATCGCTACTTATCGGAAGCATGATCTGTCTCT 2065
Query 148 TCTATGGCCGATCTCACAGCTTACTGAACAATGCGGTTTAC-----A-C---GACTTGTA 198
||| ||||||||||||| | || |||||||||| ||||||| | | ||||||||
Sbjct 2066 TCTGTGGCCGATCTCACTGTTTGCTGAACAATGTGGTTTACGTTCCAACAACGACTTGTA 2125
Query 199 CCAGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGTTCAATGCAGC 247
|||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 2126 CCAGAAAAACAACAGATCATCTTGCTTAAGATTGGTGGTTTAATGCAGC 2174
> AT3G04184.1 | Symbols: | unknown protein; Has 30201 Blast hits
to 17322 proteins in 780 species: Archae - 12; Bacteria -
1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses
- 0; Other Eukaryotes - 2996 (source: NCBI BLink). | chr3:1100085-1100246
REVERSE LENGTH=162
Length=162
Score = 163 bits (88), Expect = 6e-40
Identities = 128/145 (88%), Gaps = 12/145 (8%)
Strand=Plus/Plus
Query 94 GGA-CATGGA-TCAGGGTCTTGGTATGGCTACTTATTGGAAGCATGATCTATCTCTTCTA 151
||| || ||| |||||||||||||||||||| ||| ||||||||||||||||||||||||
Sbjct 19 GGATCAGGGATTCAGGGTCTTGGTATGGCTATTTACTGGAAGCATGATCTATCTCTTCTA 78
Query 152 TGGCCGATCTCACAGCTTACTGAACAATGCGGTTTAC-----A-CGAC---TTGTACCAG 202
||||||||||||||||||||||||||||| ||||||| | |||| ||| |||||
Sbjct 79 TGGCCGATCTCACAGCTTACTGAACAATGTGGTTTACGTTCCAACGACGACTTGAACCAG 138
Query 203 AAAAACAACAGATCATCTTGCTTAA 227
|||| ||||||||||||||||||||
Sbjct 139 AAAA-CAACAGATCATCTTGCTTAA 162
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 11209708027
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