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= Ahg337754
Length=630
Score E
Sequences producing significant alignments: (Bits) Value
AT1G54690.1 | Symbols: HTA3, H2AXB, G-H2AX, GAMMA-H2AX | gamma ... 590 7e-168
AT5G54640.1 | Symbols: HTA1, RAT5, ATHTA1 | Histone superfamily... 237 1e-61
> AT1G54690.1 | Symbols: HTA3, H2AXB, G-H2AX, GAMMA-H2AX | gamma
histone variant H2AX | chr1:20414316-20415287 REVERSE LENGTH=801
Length=801
Score = 590 bits (319), Expect = 7e-168
Identities = 364/386 (94%), Gaps = 1/386 (0%)
Strand=Plus/Plus
Query 1 ATGAGTTCCGGCGCCGGCAGTGGAACAACCAAAGGAGGCAGAGGAAAGCCGAAAGCTACA 60
||||||||||||||||||||||||||||| ||||| |||||||||||||| |||||||||
Sbjct 82 ATGAGTTCCGGCGCCGGCAGTGGAACAACTAAAGGTGGCAGAGGAAAGCCAAAAGCTACA 141
Query 61 AAGTCCGTTTCTCGATCGTCTAAAGCTGGTCTTCAGTTTCCCGTTGGAAGAATCGCTAGA 120
|||||||| |||||||| ||||||||||||||||| ||||||||||||||||||||||||
Sbjct 142 AAGTCCGTCTCTCGATCTTCTAAAGCTGGTCTTCAATTTCCCGTTGGAAGAATCGCTAGA 201
Query 121 TTCCTTAAAGCCGGAAAATACGCTGAACGTGTTGGTGCCGGTGCTCCGGTTTATCTCTCC 180
|||||||||||||| |||||||| ||||||||||||||||||||||| ||||||||||||
Sbjct 202 TTCCTTAAAGCCGGTAAATACGCCGAACGTGTTGGTGCCGGTGCTCCCGTTTATCTCTCC 261
Query 181 GCCGTTCTTGAGTACCTCGCCGCTGAGCTATTGGAGCTTGCTGGAAATGCGGCAAGAGAT 240
|||||||| || ||||||||||||||| |||||||||| ||||||||||| |||||||||
Sbjct 262 GCCGTTCTCGAATACCTCGCCGCTGAGGTATTGGAGCTAGCTGGAAATGCAGCAAGAGAT 321
Query 241 AACAAGAAGACACGTATCGTACCACGACACATTCAGCTTGCAGTGAGAAACGATGAAGAG 300
|||||||||||||||||||||||||| |||||||||||||||||||| ||||||||||||
Sbjct 322 AACAAGAAGACACGTATCGTACCACGGCACATTCAGCTTGCAGTGAGGAACGATGAAGAG 381
Query 301 CTTAGTAAACTTCTTGGAAGTGTAACAATCGCTAATGGAGGAGTTTTGCCTAATATTCAT 360
||||||||||||||||||||||||||||| |||||||||||||||||||| || ||||||
Sbjct 382 CTTAGTAAACTTCTTGGAAGTGTAACAATTGCTAATGGAGGAGTTTTGCCCAACATTCAT 441
Query 361 CAGACACTTCTCCTCATCAAAGTTTG 386
||||| ||||||| |||||||| |||
Sbjct 442 CAGACTCTTCTCC-CATCAAAGGTTG 466
> AT5G54640.1 | Symbols: HTA1, RAT5, ATHTA1 | Histone superfamily
protein | chr5:22196477-22197492 FORWARD LENGTH=669
Length=669
Score = 237 bits (128), Expect = 1e-61
Identities = 229/277 (83%), Gaps = 10/277 (4%)
Strand=Plus/Plus
Query 82 AAAGCTGGTCTTCAGTTTCCC-GTTGGAAGAATCGCTAGATTCCTT-AAAGCCGGAAAAT 139
||||| |||||||| ||||| || || | |||||| | || ||| |||||||| ||||
Sbjct 127 AAAGCCGGTCTTCA-ATTCCCGGTGGGTCGTATCGCTCG-TTTCTTAAAAGCCGGTAAAT 184
Query 140 ACGCTGAACGTGTTGGTGCCGGTGCTCCGGTTTATCTCTCCGCCGTTCTTGAGTACCTCG 199
|||| ||||||||||||||||||||||||||||||||| |||||||||| || || | |
Sbjct 185 ACGCCGAACGTGTTGGTGCCGGTGCTCCGGTTTATCTCGCCGCCGTTCTCGAATATTTGG 244
Query 200 CCGCTGAGCTA-TTGGAGCTT-GCTGGAAATGCGGCAAGAGATAACAAGAAGACACGTAT 257
|||| ||| | ||| | || |||||||| || |||||||| |||||||||||||||||
Sbjct 245 CCGCCGAGGTTCTTGAA--TTAGCTGGAAACGCAGCAAGAGACAACAAGAAGACACGTAT 302
Query 258 CGTACCACGACACATTCAGCTTGCAGTGAGAAACGATGAAGAGCTTAGTAAACTTCTTGG 317
|| || || |||||||||||||| || ||||||||||| ||||| || || ||||||||
Sbjct 303 TGTTCCTCGTCACATTCAGCTTGCGGTCAGAAACGATGAGGAGCTAAGCAAGCTTCTTGG 362
Query 318 A-AGTGTAACAATCGCTAATGGAGGAGTTTTGCCTAA 353
| | ||| || || |||||||||||||| |||||||
Sbjct 363 AGA-TGTGACGATTGCTAATGGAGGAGTGATGCCTAA 398
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 30391658935
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