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= Ahg494683
Length=616
Score E
Sequences producing significant alignments: (Bits) Value
AT5G43210.1 | Symbols: | Excinuclease ABC, C subunit, N-termin... 697 0.0
AT3G28611.1 | Symbols: | Pseudogene of AT5G43210; endo/excinuc... 302 3e-81
> AT5G43210.1 | Symbols: | Excinuclease ABC, C subunit, N-terminal
| chr5:17347567-17348641 FORWARD LENGTH=775
Length=775
Score = 697 bits (377), Expect = 0.0
Identities = 458/496 (92%), Gaps = 10/496 (2%)
Strand=Plus/Plus
Query 37 AAGCTTCGCG-ATTGCAAAACTTTGAAAAAATCACAAACCCAAGTTCCGATTTCATCATC 95
|||| || || ||| ||||| ||||||||| ||||||||||||||||||||| |||| ||
Sbjct 59 AAGC-TCCCGAATT-CAAAAATTTGAAAAATTCACAAACCCAAGTTCCGATTCCATCGTC 116
Query 96 TTCTTCGCAGCAATCGCAAGAGAACTCGAAGATCCCCAAATCCAAATCCTGGTCCGTTTA 155
||||| | | ||||||||||||| ||||| |||||||||||||||||||| |||||
Sbjct 117 TTCTT--C-TC---CGCAAGAGAACTCAAAGATTCCCAAATCCAAATCCTGGTCTGTTTA 170
Query 156 TCTCATTCTCTCCACGACCGAACCCATCAAAACATATGTCGGAATCACCACCGATTTTGC 215
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 171 TCTCATTCTCTCCACGACCGAACCCATCAAAACATATGTCGGAATCACCACCGATTTTTC 230
Query 216 TCGCCGATTGAAGCAGCACAATGGTGAAATCAGAGGTGGTGCAAAAGCTTCAAGTGCCGG 275
||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 231 TCGCCGATTAAAGCAGCACAATGGTGAAATCAGAGGTGGTGCAAAAGCTTCAAGTGCAGG 290
Query 276 AAGACCATGGCTTTGTGCTTGCATTATCACTGGATTCACTTGTTTAAGTCAAGCTTCCTC 335
||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 291 AAGACCATGGCTTTGTGCTTGCATTATCACTGGATTCACTTGTTTAAGTCAAGCTTCTTC 350
Query 336 GTTTGAATCGAAATGGAAGATCTTTTCAAGAAAGTTACCGCGGAGAAAGAAAGATGAGGA 395
||||||||| ||||||||||||||| |||||||||||||||||||||||||||| || ||
Sbjct 351 GTTTGAATCAAAATGGAAGATCTTTACAAGAAAGTTACCGCGGAGAAAGAAAGACGAAGA 410
Query 396 GATGAGTCATAGTGATGCTTTGCTTCAACACCGGAGGAGAGCATTGGAGAAAGTCGAGGA 455
|||||||| |||||||||||||| |||||||| |||||||| || | |||||||||||
Sbjct 411 CATGAGTCAGAGTGATGCTTTGCTACAACACCGTAGGAGAGCTTTAAACAAAGTCGAGGA 470
Query 456 ATCATTAGAATGTAGTCATCTTGAAACTGACTGGAAAATCTAACCAGGTAACCAA-CGAC 514
||||||||| |||||| |||||||||||||||||||||||||||||||||||||| ||||
Sbjct 471 ATCATTAGACTGTAGTTATCTTGAAACTGACTGGAAAATCTAACCAGGTAACCAAACGAC 530
Query 515 TAACTTAATTAATCAC 530
| ||||||||||||||
Sbjct 531 TGACTTAATTAATCAC 546
> AT3G28611.1 | Symbols: | Pseudogene of AT5G43210; endo/excinuclease
amino terminal domain-containing protein | chr3:10726555-10727331
REVERSE LENGTH=432
Length=432
Score = 302 bits (163), Expect = 3e-81
Identities = 373/466 (80%), Gaps = 48/466 (10%)
Strand=Plus/Plus
Query 37 AAGCTTCGCGATTGCAAAACTTTGAAAA-AATCACAAACCCAAGTTCCGATTTCATCATC 95
||||| || | || ||||| |||||||| || |||||||||||||||| | |||| ||
Sbjct 8 AAGCTCCG-GGTTTCAAAAATTTGAAAACTTTC-CAAACCCAAGTTCCGAGTCCATCTTC 65
Query 96 TTCTTCGCA-GCAATCGCAAGAGAACTCGAAGATCCCCAAATCCAAATCCTGGTCCGTTT 154
||||||||| ||||||||||||| | | || || | || ||| | |||||||||||
Sbjct 66 TTCTTCGCATCCAATCGCAAGAGATCCCCAA-AT--CTAATTCCTGGT-CTGGTCCGTTT 121
Query 155 ATCTCATTCTCTCCACGACCGAACCCATCAAAACATATGTCGGAATCACCACCGATTTTG 214
||||||||||||||||||||||||||||||||||||||||| | ||||| |
Sbjct 122 ATCTCATTCTCTCCACGACCGAACCCATCAAAACATATGTC-G----------GATTTCG 170
Query 215 CTCGCCGATTGAAGCAGCACAATGGTGAAATCAGAGGTGGTGCAAAAGCTTCAAGTGCCG 274
|||| |||| ||||||||| |||| |||||||||||||||||||||||||||||| | |
Sbjct 171 CTCG-AGATTAAAGCAGCACTATGGAGAAATCAGAGGTGGTGCAAAAGCTTCAAGTACAG 229
Query 275 GAAGACCATGGCTTTGTGCTTGCATTATC-ACTGGATTCACTTGTTTAAGT--CA--AGC 329
|||||||||||||||||||||||||| | | | ||| |||||||| || | |||
Sbjct 230 GAAGACCATGGCTTTGTGCTTGCATTCTGTAA-G--TTCCCTTGTTTA-GTTTCTGCAGC 285
Query 330 TTCCTCGTTTGAATCGAAATGGAAGATCTTTTCAAGAAAGTTACCGCGGAGAAAGAAAGA 389
||| || |||||||||| |||||||||||||||||||||| | | || || ||
Sbjct 286 TTCGTCATTTGAATCGAGATGGAAGATCTTTTCAAGAAAGAT---G---AG---GA--GA 334
Query 390 TGAGGAGATGAGTCATAGTGATGCTTTGCTTCAACACCGGAGGAGAGCATTGGAGAAAGT 449
||| | ||| |||||||||||| ||||||||| |||||||| |||||||||||
Sbjct 335 TGA-----T---TCAGAGTGATGCTTTGATTCAACACCAAAGGAGAGCTTTGGAGAAAGT 386
Query 450 CGAGGAATCATTAGAATGTAGTCATCTTGAAACTGACTGGAAAATC 495
| | || ||| ||||||| ||||||||||||||||||| |||||||
Sbjct 387 CTAAGAGTCACTAGAATGCAGTCATCTTGAAACTGACTAGAAAATC 432
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 29688380877
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