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= Ahg940077
Length=456
Score E
Sequences producing significant alignments: (Bits) Value
AT1G79245.1 | Symbols: | pseudogene of unknown protein | chr1:... 226 2e-58
AT1G80865.1 | Symbols: | unknown protein; Has 3 Blast hits to ... 117 1e-25
AT4G19630.1 | Symbols: | winged-helix DNA-binding transcriptio... 84.2 1e-15
> AT1G79245.1 | Symbols: | pseudogene of unknown protein | chr1:29804735-29809514
REVERSE LENGTH=4780
Length=4780
Score = 226 bits (122), Expect = 2e-58
Identities = 170/193 (88%), Gaps = 4/193 (2%)
Strand=Plus/Plus
Query 16 TGTTTTAAG-GATGTTGTCTTCATTCTACAAGAACATATACAATGTCGTGGATGATCCTT 74
||||| ||| |||||| | ||||||||||| | | ||||||||||||||||||||| |
Sbjct 4188 TGTTTGAAGTTATGTTGAGTACATTCTACAAG-A-AGATACAATGTCGTGGATGATCCAT 4245
Query 75 CATCGGATCCAATAATCTCGTGGAGCAAAAGCAACAATAGCTTCATCGTTTGGAATCTTG 134
|| ||||||||| |||||||||||||||||| ||||||||||||||||| ||||||| |
Sbjct 4246 AATTGGATCCAATTATCTCGTGGAGCAAAAGCCACAATAGCTTCATCGTT-GGAATCTGG 4304
Query 135 AAGGGCTTCAGAGAGAGGTTCTGCCGAAATCGATAGAATTTGGCAAACATTACTTAAAGT 194
||| |||||| |||| |||||||||||||||||||||||||||| ||||||||| |||
Sbjct 4305 AAGCGCTTCACCGAGAAGTTCTGCCGAAATCGATAGAATTTGGCAGACATTACTTGGAGT 4364
Query 195 TTATGACCGAACT 207
|||||||||||||
Sbjct 4365 TTATGACCGAACT 4377
Score = 198 bits (107), Expect = 3e-50
Identities = 145/163 (89%), Gaps = 4/163 (2%)
Strand=Plus/Plus
Query 218 GGCTTTAAAAGAATTAAGGGGTCTGCA-CAGTGGGAATTTGGACATGAGTATTTCGTGAG 276
||||||| ||||||||||| ||| | | || || |||| ||||||||||||||| |||||
Sbjct 4479 GGCTTTAGAAGAATTAAGGAGTCAG-AGCAATGAGAATGTGGACATGAGTATTTTGTGAG 4537
Query 277 AGGTCAACCTGAGCTTTTGGTGAAGATGATGTTCAAAACTGGGATGAAGAGGATTGAGCA 336
||| |||||||||||||||||||||||||||||||||||||||||||||||| ||||| |
Sbjct 4538 AGGCCAACCTGAGCTTTTGGTGAAGATGATGTTCAAAACTGGGATGAAGAGGTTTGAGGA 4597
Query 337 ACTTGCAG-CTATACGTAGAGCAAAGAAAAAGAAAGCCAAAGC 378
|||||||| | | ||| ||||||||||||||||||| |||||
Sbjct 4598 ACTTGCAGTCAA-ACGCCGAGCAAAGAAAAAGAAAGCTAAAGC 4639
> AT1G80865.1 | Symbols: | unknown protein; Has 3 Blast hits to
3 proteins in 1 species: Archae - 0; Bacteria - 0; Metazoa
- 0; Fungi - 0; Plants - 3; Viruses - 0; Other Eukaryotes -
0 (source: NCBI BLink). | chr1:30389538-30390557 FORWARD LENGTH=721
Length=721
Score = 117 bits (63), Expect = 1e-25
Identities = 104/123 (85%), Gaps = 5/123 (4%)
Strand=Plus/Minus
Query 300 AGATGATGTTCAAAACTGGGATGAAGAGGATTGAGCAACTTGCAGCTATACGTAGAGCAA 359
||||||||||||||||||||||||||||||||||| |||||| ||| | ||| ||||||
Sbjct 280 AGATGATGTTCAAAACTGGGATGAAGAGGATTGAGGAACTTGGAGCCAAACGCCGAGCAA 221
Query 360 AGAAAAAGAAAGCCAAAGC---AGCTAAAGCTAAAGCCGAAGCTGAAGTAGA-GAATCGC 415
|| ||||||| | ||||| ||| ||||||||||| ||||| |||||||| || || |
Sbjct 220 AGGAAAAGAATTCTAAAGCTGCAGCCAAAGCTAAAGCTGAAGCGGAAGTAGAAGA-TCAC 162
Query 416 TTG 418
|||
Sbjct 161 TTG 159
> AT4G19630.1 | Symbols: | winged-helix DNA-binding transcription
factor family protein | chr4:10683936-10684683 REVERSE LENGTH=655
Length=655
Score = 84.2 bits (45), Expect = 1e-15
Identities = 49/51 (96%), Gaps = 0/51 (0%)
Strand=Plus/Plus
Query 62 GTGGATGATCCTTCATCGGATCCAATAATCTCGTGGAGCAAAAGCAACAAT 112
||||| |||||||| ||||||||||||||||||||||||||||||||||||
Sbjct 127 GTGGAAGATCCTTCGTCGGATCCAATAATCTCGTGGAGCAAAAGCAACAAT 177
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 21715667568
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