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= Ahg478785
Length=764
Score E
Sequences producing significant alignments: (Bits) Value
AT3G13825.1 | Symbols: | pseudogene of F-box family protein | ... 874 0.0
AT1G11806.1 | Symbols: | pseudogene, hypothetical protein, lik... 401 4e-111
> AT3G13825.1 | Symbols: | pseudogene of F-box family protein
| chr3:4552524-4553382 FORWARD LENGTH=859
Length=859
Score = 874 bits (473), Expect = 0.0
Identities = 611/676 (90%), Gaps = 15/676 (2%)
Strand=Plus/Plus
Query 1 ATGACGACTTTGTCCGATCTTTTAGTAGATTTGGTGGGTGAGATATTCTCTAGGGTTCCA 60
||||||||||||||| |||||| ||||||||||||||| |||||||||||||| ||||||
Sbjct 1 ATGACGACTTTGTCCAATCTTTCAGTAGATTTGGTGGGAGAGATATTCTCTAGAGTTCCA 60
Query 61 TTGATATCTCTGAGCGCAGTGCGATATACTTGTAAAACGTGGAACGCTTTATCCTGGAAC 120
|||||||||||||| | |||||||| |||||||| |||||||||| ||||||||||||||
Sbjct 61 TTGATATCTCTGAGTGAAGTGCGATGTACTTGTACAACGTGGAACACTTTATCCTGGAAC 120
Query 121 GTTTTATCCGAAAATCATATTTTTGGTATAGCAGCA-ACTAGTAAGCAGTTTCTAGGGTT 179
|||| || |||||| || ||||||||| ||||| | || |||||||| |||||||| ||
Sbjct 121 ATTTTGTCGGAAAATTATGTTTTTGGTAAAGCAG-ATACAAGTAAGCAATTTCTAGGTTT 179
Query 180 CGTAATAGTGGATTAC-AAGGTTTGTTCCCTGAGACTTGATCTCCAAGGAATCCACAACA 238
|||| || || ||| | |||||||||||||||||||||||||||||||||||||||||||
Sbjct 180 CGTAGTAATGAATT-CTAAGGTTTGTTCCCTGAGACTTGATCTCCAAGGAATCCACAACA 238
Query 239 ACGATTTCGTTGATCCATCTATAAAGGAAATACAGATATACTTCATCAACACGAGATATC 298
|||||||||||||||||||| ||||||||||| | ||||| || ||||| |||| |||||
Sbjct 239 ACGATTTCGTTGATCCATCTTTAAAGGAAATA-A-ATATAGTTGATCAATACGATATATC 296
Query 299 TAATATCTTTCACTGCGATGGCTTATTGTTATGTGTCAGGTGGATCGAACCAAGAAGCAA 358
|||||| |||||||| || |||||||||||||| |||||||||||| |||||||||||||
Sbjct 297 TAATATATTTCACTGTGACGGCTTATTGTTATGCGTCAGGTGGATCCAACCAAGAAGCAA 356
Query 359 ATACCAAAAATTCCACAGATTAGACATGTATGCTTTCGGTTACGACAA-CAACAA---GA 414
|||||| || |||||||||||||||||||||||||||||||||||||| |||||| ||
Sbjct 357 ATACCATAAGTTCCACAGATTAGACATGTATGCTTTCGGTTACGACAAACAACAACAAGA 416
Query 415 ACCGTAACCACAAAATCTTGAGGAAGTTTTTGGATGATGATGACTACAACGAAAGCAGTC 474
|||||||||||||| |||||||||||||||||||||||||||| |||||| ||||||||
Sbjct 417 ACCGTAACCACAAATTCTTGAGGAAGTTTTTGGATGATGATGAATACAACAAAAGCAGTA 476
Query 475 AAAGAAATATTCCTTTCAAGTTCGAGATGTATTATTTTAACTCTGAATCATGGAGAGTTC 534
||| |||| |||||| |||||||||||| ||||||||||||||||| |||||||||||||
Sbjct 477 AAATAAATTTTCCTTCCAAGTTCGAGATATATTATTTTAACTCTGATTCATGGAGAGTTC 536
Query 535 TTGATGTCAATCCCGACTGTGATTTACGAA-GAGGCGTGTCTTTGAAGGGAAATACTTAT 593
|||||||||||||||||||||||||| ||| ||| ||||||||||||||| ||||||||
Sbjct 537 TTGATGTCAATCCCGACTGTGATTTA-GAAAGAGATGTGTCTTTGAAGGGACATACTTAT 595
Query 594 TCTTATGCTCGACAAATAATAGAGGTTGGAGATCCAGTTTCAAATAGTATTGATTTTTTA 653
| |||||||||||||| || ||||| ||||| |||||||||||| |||||| |||||||
Sbjct 596 TATTATGCTCGACAAA-AA--GAGGTCGGAGAGCCAGTTTCAAATCGTATTGGTTTTTTA 652
Query 654 CTCTGTTTTGATTTTA 669
||||||||||||||||
Sbjct 653 CTCTGTTTTGATTTTA 668
> AT1G11806.1 | Symbols: | pseudogene, hypothetical protein, likely
a tandem duplication of the immediatly downstream hypothetical
protein which has since degenerated. | chr1:3988346-3989398
FORWARD LENGTH=1053
Length=1053
Score = 401 bits (217), Expect = 4e-111
Identities = 303/343 (88%), Gaps = 11/343 (3%)
Strand=Plus/Plus
Query 1 ATGACGACTTTGTCCGATCTTTTAGTAGATTTGGTGGGTGAGATATTCTCTAGGGTTCCA 60
|||||||||||||||||||||| ||||||||||||||| |||||||||||||| ||||||
Sbjct 1 ATGACGACTTTGTCCGATCTTTCAGTAGATTTGGTGGGAGAGATATTCTCTAGAGTTCCA 60
Query 61 TTGATATCTCTGAGCGCAGTGCGATATACTTGTAAAACGTGGAACGCTTTATCCTGGAAC 120
|||||||||||||| | ||||| || |||||||| |||||||||| ||||||||||||||
Sbjct 61 TTGATATCTCTGAGTGAAGTGCAATGTACTTGTACAACGTGGAACACTTTATCCTGGAAC 120
Query 121 GTTTTATCCGAAAATCATATTTTTGGT-A-T--AGCAGCA-ACTAGTAAGCAGTTTCTAG 175
||||| || |||||| || |||||||| | | ||||| | || |||||||| |||||||
Sbjct 121 GTTTTGTCGGAAAATTATGTTTTTGGTAATTAAAGCAG-ATACAAGTAAGCAATTTCTAG 179
Query 176 GGTTCGTAATAGTGGATTAC-AAGGTTTGTTCCCTGAGACTTGATCTCCAAGGAATCCAC 234
| |||||| || || ||| | |||||||||||||||||||||||||||||||||||||||
Sbjct 180 GTTTCGTAGTAATGTATT-CTAAGGTTTGTTCCCTGAGACTTGATCTCCAAGGAATCCAC 238
Query 235 AACAACGATTTCGTTGATCCATCTATAAAGGAAATACAGATATACTTCATCAACACGAGA 294
|||||||||||||||||||||||| ||||||||||| | |||| || ||||| |||| |
Sbjct 239 AACAACGATTTCGTTGATCCATCTTTAAAGGAAATATA--TATAGTTGATCAATACGATA 296
Query 295 TATCTAATATCTTTCACTGCGATGGCTT-ATTGTTATGTGTCA 336
|||||||||| |||||||| || ||||| ||||||||| ||||
Sbjct 297 TATCTAATATATTTCACTGTGACGGCTTGATTGTTATGCGTCA 339
Score = 126 bits (68), Expect = 3e-28
Identities = 79/84 (94%), Gaps = 1/84 (1%)
Strand=Plus/Plus
Query 334 TCAGGTGGATCGAACCAAGAAGCAAATACCAAAAATTCCACAGATTAGACATGTATGCTT 393
||||||||||| ||||||||||||||||||| || |||||||||||||||||||||||||
Sbjct 391 TCAGGTGGATCCAACCAAGAAGCAAATACCATAAGTTCCACAGATTAGACATGTATGCTT 450
Query 394 TCGGTTACGACAA-CAACAAGAAC 416
||||||||||||| |||||| |||
Sbjct 451 TCGGTTACGACAAACAACAACAAC 474
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 37123034633
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