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= Ahg470332
Length=733
Score E
Sequences producing significant alignments: (Bits) Value
AT1G03600.1 | Symbols: PSB27 | photosystem II family protein | ... 1050 0.0
> AT1G03600.1 | Symbols: PSB27 | photosystem II family protein
| chr1:898876-899655 FORWARD LENGTH=780
Length=780
Score = 1050 bits (568), Expect = 0.0
Identities = 672/720 (93%), Gaps = 16/720 (2%)
Strand=Plus/Plus
Query 1 GAGTTCCGACAATGGCATCAGCTTCAGCGACAGCTACTCTTCTCAAACCCAATCCTCCGC 60
|||||||||||||||| ||||| ||||||||||||||||||||||||||||||| |||||
Sbjct 30 GAGTTCCGACAATGGCTTCAGCATCAGCGACAGCTACTCTTCTCAAACCCAATCTTCCGC 89
Query 61 CGCATAAACCGACCATCATCGCCTCCTCCGTATCTCCGCCTCTTCCTCCTCCACGTCGCA 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 90 CGCATAAACCGACCATCATCGCCTCCTCCGTATCTCCGCCTCTTCCTCCTCCACGTCGCA 149
Query 121 ACCACCTCCTCCGCCGCGATTTCCTCTCCCTAGCGGCAACATCCACGCTTCTAACACAAT 180
||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 150 ACCACCTCCTCCGCCGCGATTTCCTCTCCCTGGCGGCAACATCCACGCTTCTAACACAAT 209
Query 181 CGATTCCGTTTCTAGCTCCGGCGCCAG-CTTCCGCCGCTGAAGATGAAGAGTATATCAAA 239
|||||| |||||||||||||||||| | || |||||||||||||||||||||||||||||
Sbjct 210 CGATTCAGTTTCTAGCTCCGGCGCCGGTCT-CCGCCGCTGAAGATGAAGAGTATATCAAA 268
Query 240 GATACATCGGCAGTGATCAGTAAAGTTAGGAGTACGCTTTCGATGCAGAAGACAGATCCA 299
||||| |||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 269 GATACGTCGGCAGTGATCAGTAAAGTAAGGAGTACGCTTTCGATGCAGAAGACAGATCCG 328
Query 300 AATGTGGCTGATGCGGTGGCAGAGCTGAGAGAAGCGTCGAATTCTTGGGTTGCTAAGTAC 359
|||||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||
Sbjct 329 AATGTGGCTGATGCGGTGGCGGAGCTGAGAGAAGCGTCGAATTCTTGGGTTGCCAAGTAC 388
Query 360 CGGAAAGAGAAAGCTCTTCTCGGAAAAGCTTCTTTCCGGGATATTTACTCGGCGTTGAAT 419
|||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct 389 CGGAAAGAGAAAGCTCTTCTCGGAAAAGCTTCTTTCCGGGATATATACTCGGCGTTGAAT 448
Query 420 GCTGTTTCAGGTCATTATGTGAGTTTTGGTCCGACGGCTCCGATTCCGGCGAAGAGGAAG 479
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 449 GCTGTTTCAGGTCATTATGTGAGTTTTGGTCCGACGGCTCCGATTCCGGCGAAGAGGAAG 508
Query 480 GCAAGGATTCTTGAAGAGATGGAAACTGCTGAGAAGGCTCTCTCAAGAGGAAGATGAAAA 539
|| |||||||||||||||||||||||||||||||| |||||| |||||||||||||||||
Sbjct 509 GCGAGGATTCTTGAAGAGATGGAAACTGCTGAGAAAGCTCTCACAAGAGGAAGATGAAAA 568
Query 540 AT-TGACAATTTCTTCTTCTCCTCCATTTTCTTGTTGATGAAA-TTTTATTTTCCTAAAA 597
| || || | ||||| |||||||||||||||||||||| ||||||||||||||||
Sbjct 569 AACTG-CAGTCAGGCCTTCTTCTCCATTTTCTTGTTGATGAAAATTTTATTTTCCTAAAA 627
Query 598 TTGCCAATCAAATTATATGAGAAGAGAAACTTGAATTGGCTCGCAATCGCATGCCAtttt 657
|||||||| |||||||||||||||||||||||||||||||||| | || | ||||
Sbjct 628 ATGCCAATCGAATTATATGAGAAGAGAAACTTGAATTGGCTCGCC-T-GCTTT---TTTT 682
Query 658 ttt--ttCCCTGTAAAATACTTATCAATATCCTGCATGATAATTACTTGATTATCATTAT 715
||| |||| ||||||||||||| | | | ||||||||||||| ||| |||||||||||
Sbjct 683 TTTCATTCC-TGTAAAATACTTA--A-TGTTCTGCATGATAATTGCTTAATTATCATTAT 738
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 35565776076
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