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= Ahg891045
Length=267
Score E
Sequences producing significant alignments: (Bits) Value
AT4G04408.1 | Symbols: | pseudogene, similar to Putative histo... 333 5e-91
AT4G13570.2 | Symbols: HTA4 | histone H2A 4 | chr4:7884516-7885... 327 2e-89
> AT4G04408.1 | Symbols: | pseudogene, similar to Putative histone
H2A, blastp match of 79% identity and 3.0e-31 P-value to
GP|22773254|gb|AAN06860.1||AC105729 Putative histone H2A {Oryza
sativa (japonica cultivar-group)} | chr4:2184059-2184400
REVERSE LENGTH=342
Length=342
Score = 333 bits (180), Expect = 5e-91
Identities = 239/268 (89%), Gaps = 2/268 (1%)
Strand=Plus/Plus
Query 1 TTTCCAGTGGGTCGTATTCACAGGCAAGTCAAGACCATAGTTTCTGCACATGGTAGAGTT 60
|||||||||| ||||||||||| |||| | ||||||| ||||||||||||||||| |||
Sbjct 61 TTTCCAGTGGCTCGTATTCACAAGCAACTTAAGACCAGAGTTTCTGCACATGGTACTGTT 120
Query 61 GGTGCCACT-ACTGATGTCTACACGGCTTCAATCCTTGAATACCTAACTACAAAGGTTCT 119
||||| ||| | || |||||||||| ||||||||||||||| ||||||||| |||||||
Sbjct 121 GGTGCGACTGA-TGTTGTCTACACGACTTCAATCCTTGAATGCCTAACTACTGAGGTTCT 179
Query 120 TGAGTTGGCTGGAAACGCGAGCAAAGATCTGAAACTGAAGAGGATAACTCCAAGGCATTT 179
| ||||||| | |||| | | ||| ||| ||||| |||||||||||||||||||||||||
Sbjct 180 TCAGTTGGCCGAAAACACTAACAAGGATTTGAAAGTGAAGAGGATAACTCCAAGGCATTT 239
Query 180 GCAGTTGGCGATCAGAGGAGATGAGGAGCTTGACACACTCATCAAAGGAACAATTGCTGG 239
|||||||||| | ||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct 240 GCAGTTGGCGGTTAGAGGAGATGAGGAGCTTGACACACTCATCAAAGGAACAATTGTTGG 299
Query 240 AGGAGGTGTGATCCCTCACACCCAGTAG 267
|||||||||||||||||||| ||| |||
Sbjct 300 AGGAGGTGTGATCCCTCACATCCACTAG 327
> AT4G13570.2 | Symbols: HTA4 | histone H2A 4 | chr4:7884516-7885982
FORWARD LENGTH=759
Length=759
Score = 327 bits (177), Expect = 2e-89
Identities = 238/268 (89%), Gaps = 2/268 (1%)
Strand=Plus/Plus
Query 1 TTTCCAGTGGGTCGTATTCACAGGCAAGTCAAGACCATAGTTTCTGCACATGGTAGAGTT 60
|||| ||||| ||||||||||| |||| | |||| || ||||||||||||| |||| |||
Sbjct 175 TTTCAAGTGGCTCGTATTCACAAGCAACTTAAGAACAGAGTTTCTGCACATAGTAGTGTT 234
Query 61 GGTGCCACT-ACTGATGTCTACACGGCTTCAATCCTTGAATACCTAACTACAAAGGTTCT 119
||||| ||| | || |||||||| | |||||||||||||||||||||||||| |||||||
Sbjct 235 GGTGCGACTGA-TGTTGTCTACATGACTTCAATCCTTGAATACCTAACTACAGAGGTTCT 293
Query 120 TGAGTTGGCTGGAAACGCGAGCAAAGATCTGAAACTGAAGAGGATAACTCCAAGGCATTT 179
| ||||||| | |||| | ||||||||| | ||| |||||||||||||||||||||||||
Sbjct 294 TCAGTTGGCCGAAAACACTAGCAAAGATTTAAAAGTGAAGAGGATAACTCCAAGGCATTT 353
Query 180 GCAGTTGGCGATCAGAGGAGATGAGGAGCTTGACACACTCATCAAAGGAACAATTGCTGG 239
|||||||||||||||||||||||| |||||||||||||||||||||||||||||| |||
Sbjct 354 GCAGTTGGCGATCAGAGGAGATGAAGAGCTTGACACACTCATCAAAGGAACAATTATTGG 413
Query 240 AGGAGGTGTGATCCCTCACACCCAGTAG 267
|||| ||||||||||||||| ||| |||
Sbjct 414 AGGAAGTGTGATCCCTCACATCCACTAG 441
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 12215063007
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