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= Ahg945600
Length=592
Score E
Sequences producing significant alignments: (Bits) Value
AT4G24972.1 | Symbols: TPD1 | tapetum determinant 1 | chr4:1283... 809 0.0
AT4G24977.1 | Symbols: | Pseudogene of AT4G24972; TPD1 (TAPETU... 405 2e-112
> AT4G24972.1 | Symbols: TPD1 | tapetum determinant 1 | chr4:12837353-12839823
FORWARD LENGTH=935
Length=935
Score = 809 bits (438), Expect = 0.0
Identities = 542/588 (92%), Gaps = 24/588 (4%)
Strand=Plus/Plus
Query 7 CGACGTCTAGGCACATGAACCGACGGCGACTTTTGGTATCGGCGACACTGGTCTCGTACT 66
||||||||| |||||||||||||||||||||||||||||||||||||||| ||||||| |
Sbjct 187 CGACGTCTACGCACATGAACCGACGGCGACTTTTGGTATCGGCGACACTGCTCTCGTATT 246
Query 67 TGCTCTACGGCATGGCTTTCGTCTCCGTTGAAGCCTCCGGTGGTACTAAAATCAAACGTG 126
||||||||||||||||| ||||||||||||||||||||||| | |||
Sbjct 247 TGCTCTACGGCATGGCTCTCGTCTCCGTTGAAGCCTCCGGT-G--------------GTG 291
Query 127 AAAAGCTTAGAGATTATCTGGATTTGACTAAAACGACGACGTTGTCACCGAGC-TCATCA 185
|||||||||||||| ||||||||||||||||||||||||||| |||||||||| | ||||
Sbjct 292 AAAAGCTTAGAGATAATCTGGATTTGACTAAAACGACGACGTCGTCACCGAGCAT-ATCA 350
Query 186 CATCGGAAAATGCTTCTTCTCTCTCCTGGTCCTGAAAAAGGAAAAGCAGAAAGCAGGGCA 245
|||||||||||||| ||||||||||||||| || |||||| ||||||| || | |
Sbjct 351 CATCGGAAAATGCTGCTTCTCTCTCCTGGTACT------GGAAAAACAGAAAGGAGTGTA 404
Query 246 GAGCCGGAGAGAATCGGAGATAAGTGCAAGAGTACGGACATAGTGGTGAACCAAGCAGTA 305
|||||||||||||| ||||| |||||||||||||||||||||||||||||||||||||||
Sbjct 405 GAGCCGGAGAGAATTGGAGAAAAGTGCAAGAGTACGGACATAGTGGTGAACCAAGCAGTA 464
Query 306 ACGGAACCAATGCCTAACGGAATACCAGGTTACATGGTAGAGATAACGAACCAGTGTATG 365
||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 465 ACGGAACCAATGCCTAACGGAATACCAGGCTACATGGTAGAGATAACGAACCAGTGTATG 524
Query 366 TCTGGATGCATAATTTCGAGGATCCACATCAACTGCGGGTGGTTCAGCTCGGCTAAGTGG 425
|||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||| |
Sbjct 525 TCTGGATGCATAATTTCGAGGATCCACATCAACTGCGGTTGGTTCAGCTCAGCTAAGTTG 584
Query 426 ATAAACCCAAGAGTCTTCAAGCGTATTCACTACGACGACTGTCTCGTCAACAACGGCAAG 485
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 585 ATAAACCCAAGAGTCTTCAAGCGTATTCACTACGACGACTGTCTCGTCAACAACGGCAAG 644
Query 486 CCTTTACCTTTTGGCTCCACTCTCTCTTTTCACTACGCCAACACTTTCCCTTACCATCTC 545
||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 645 CCTTTGCCTTTTGGCTCCACTCTCTCTTTTCACTACGCCAACACTTTCCCTTACCATCTC 704
Query 546 TCTGTCGCCTTCGTGACCTGTTCTTAGGTGGTGGCTTTT-CTTTTAGT 592
||||||||||||||||| ||| ||||||| ||||||||| ||||||||
Sbjct 705 TCTGTCGCCTTCGTGACATGTGCTTAGGTCGTGGCTTTTTCTTTTAGT 752
> AT4G24977.1 | Symbols: | Pseudogene of AT4G24972; TPD1 (TAPETUM
DETERMINANT 1) | chr4:12845676-12846015 FORWARD LENGTH=340
Length=340
Score = 405 bits (219), Expect = 2e-112
Identities = 317/359 (88%), Gaps = 27/359 (8%)
Strand=Plus/Plus
Query 222 AAAGGAAAAGCAGAAAGCAGGGCAGAGCCGGAGAGAATCGGAGATAAGTGCAAGAGTACG 281
|||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct 1 AAAGGAAAAGCAGAAAGCAGGGCAGAGCCGGAAAGAATCGGAGATAAGTGCAAGAGTACG 60
Query 282 GACATAGTGGTGAACCAAGCAGTAACGGA-ACCAATGCCTAACGGAATACCAGGTTACAT 340
||||||||||||||||||||||| || || |||||||||||| ||||||||| |||| ||
Sbjct 61 GACATAGTGGTGAACCAAGCAGTGAC-GATACCAATGCCTAATGGAATACCATGTTATAT 119
Query 341 GGTAGAGATAACGAACCAGTGTATGTCTGGATGCATAATTTCGAGGATCCACATCAACTG 400
| | | | |||||||||||||||||||||||||||| || ||||||||
Sbjct 120 --T---G-T--------A--GTATGTCTGGATGCATAATTTCGAGGATACATATCAACTG 163
Query 401 CGGGTGGTTCAGCTCGGCTAAGTGGATAAACCCAAGAGTCTTCAAGCGTATTCACTACGA 460
||| ||||||||||||||||||||||||||||||||| ||||||| |||||| |||||||
Sbjct 164 CGGTTGGTTCAGCTCGGCTAAGTGGATAAACCCAAGACTCTTCAAACGTATTTACTACGA 223
Query 461 CGACTGTCTCGTCAACAACGGCAAGCC----TTTACCTTTTGGCTCCACTCTCTCTTTTC 516
|||||||||||||||||| ||||||| ||| |||||||||||||||||||||||||
Sbjct 224 AGACTGTCTCGTCAACAACAGCAAGCCTAAATTTGCCTTTTGGCTCCACTCTCTCTTTTC 283
Query 517 ACTAC-GCCAACACTTTCCCTTACCA-TCTCTCTGTCG-CCTTCGTGACCTGTTCTTAG 572
||||| || ||||||||||||||||| ||| |||| || ||||||||||||||||||||
Sbjct 284 ACTACCGC-AACACTTTCCCTTACCAATCTATCTG-CGGCCTTCGTGACCTGTTCTTAG 340
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 28482761349
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