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= Ahg904679
Length=1008
Score E
Sequences producing significant alignments: (Bits) Value
AT3G17203.1 | Symbols: GA2OX5 | a pseudogene initially named GA... 534 5e-151
AT3G17200.1 | Symbols: | transposable element gene | chr3:5869... 161 1e-38
> AT3G17203.1 | Symbols: GA2OX5 | a pseudogene initially named
GA2ox5 and thought to be a member of the gibberellin 2-oxidase
enzyme family. It was later shown to have a large DNA insert
in the putative gene model. | chr3:5870787-5872854 FORWARD
LENGTH=2068
Length=2068
Score = 534 bits (289), Expect = 5e-151
Identities = 343/370 (93%), Gaps = 0/370 (0%)
Strand=Plus/Plus
Query 368 GCTCCGCAGTGACTTGTTACGTAGAAGCAGTTAAGCAGTTGGCGTGTGAGATCTTAGATC 427
|||| || ||||| ||||||||||||||| |||||||||||||||||||||||||||| |
Sbjct 1226 GCTCTGCGGTGACGTGTTACGTAGAAGCAATTAAGCAGTTGGCGTGTGAGATCTTAGACC 1285
Query 428 TCACGGCTGAAGGACTTCGGCTCCCACCTCATACCTTCAGCAAATTAATCAGAGCCGTTG 487
|||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||
Sbjct 1286 TCACGGCTGAAGGACTACGGCTCCCACCTCATACCTTCAGCAAGTTAATCAGAGCCGTTG 1345
Query 488 ATAGCGACTCAGTTCTTAGGTTTAATCACTACCCATCGTCCGATCAATTTCTTAGTGGAG 547
|||||||||||||||| ||| |||||||||||||||| ||| ||||||| ||||||||||
Sbjct 1346 ATAGCGACTCAGTTCTCAGGCTTAATCACTACCCATCATCCAATCAATTCCTTAGTGGAG 1405
Query 548 CCAACCTCTCTGATAAGTCTGTGTCATTACCGAGAGTTGGCTTCGGGGAGCACACAGACC 607
|||| | ||||||| ||||||||||||||||||||||||||||||||| ||||||||||
Sbjct 1406 CCAAGGTTTCTGATATGTCTGTGTCATTACCGAGAGTTGGCTTCGGGGAACACACAGACC 1465
Query 608 CTCAGATCTTGACAGTTCTCAGATCCAACGGAGTAGGGGGCCTCCAGGTGGCATTCCCTG 667
|||||||||||||||| || |||||||| ||||||||||||||||||||||||||||||
Sbjct 1466 CTCAGATCTTGACAGTCCTTAGATCCAATAGAGTAGGGGGCCTCCAGGTGGCATTCCCTG 1525
Query 668 ACGGAAGATGGGTCTCTGTCTCTCCTGACCCTTCTGCTTTTTGCGTAAACGTAGGCGATC 727
||||||| |||||||||||||| ||||||||||| | |||||||||||||| |||||||
Sbjct 1526 ACGGAAGGTGGGTCTCTGTCTCCCCTGACCCTTCAACCTTTTGCGTAAACGTTGGCGATC 1585
Query 728 TTTTGCAGGT 737
||||||||||
Sbjct 1586 TTTTGCAGGT 1595
Score = 403 bits (218), Expect = 1e-111
Identities = 254/272 (93%), Gaps = 0/272 (0%)
Strand=Plus/Plus
Query 97 AAAGCTTGCGAGTCCATTGGTTTCTTCAAAGTGGTCAACCACGGCGTTGACCCGGACGTT 156
|||||||||||| ||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct 88 AAAGCTTGCGAGACCATTGGTTTCTTCAAAGTGGTCAACCACGGTGTTGACCCGGACGTT 147
Query 157 ATCTCCCGGATGGAGCAAGAGTCCATAAACTTCTTCGCTAAACCGGTTCTTGAGAAGAAA 216
||||||||| ||||||||||||||||||||||||| |||||||| |||||||||||||||
Sbjct 148 ATCTCCCGGTTGGAGCAAGAGTCCATAAACTTCTTTGCTAAACCTGTTCTTGAGAAGAAA 207
Query 217 TCTGTCGGACCGGTGGTGAACCGGCCTTTTGGCTATGGGTTGAAGGACATTGGGCTCAAG 276
|| |||||| ||||||| ||||||||||| || |||||| ||||| | |||||||||||
Sbjct 208 TCGGTCGGATCGGTGGTTAACCGGCCTTTCGGTTATGGGCTGAAGAATATTGGGCTCAAA 267
Query 277 GGTGATATTGGGGAGGTCGAGTATTTGCTCCTTCACACTAATCCTCTCTTCCTTTCTCAG 336
||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 268 GGTGATATTGGAGAGGTCGAGTATTTGCTCCTTCACACTAATCCTCTCTTCCTTTCTCAG 327
Query 337 TTATCGTCTGGGAACGATTCTACCAAGTTCGG 368
||||| | ||| ||||||||||||||||||||
Sbjct 328 TTATCATTTGGTAACGATTCTACCAAGTTCGG 359
Score = 398 bits (215), Expect = 7e-110
Identities = 255/275 (93%), Gaps = 0/275 (0%)
Strand=Plus/Plus
Query 734 AGGTAATGACGAATGGGAGATTCCTAAGCGTACGACACAGGGCGGTGACTACAGGACATG 793
|||| |||||||||||||||||| |||||||||||||||| ||||||||||| |||||||
Sbjct 1794 AGGTGATGACGAATGGGAGATTCTTAAGCGTACGACACAGAGCGGTGACTACCGGACATG 1853
Query 794 CAAGCAGGTTATCGATGGCATACTTTGCCGGTCCGTCCGTCCATGCAAAGATAGGCCCTC 853
|||||||| |||||||||| |||||||||||||| ||||||||||||||||||||||||
Sbjct 1854 CAAGCAGGCTATCGATGGCGTACTTTGCCGGTCCATCCGTCCATGCAAAGATAGGCCCTA 1913
Query 854 TCCCGACAATCGTCACGGCGGCAGATCAGCCACGGCTTTACCGGACGTTCACATGGGCTG 913
| ||| |||| || |||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 1914 TTCCGGGAATCATCCCGGCGGCAGAACAGCCACGGCTTTACCGGACGTTCACATGGGCTG 1973
Query 914 ACTACAAGAAGTTTGCTTACTCACTAGGCCTTGGAGATAACCGTCTTGACATTTTCCGCT 973
|||||||||||||||||||||| ||| |||||||||||||||||||||||||||||||||
Sbjct 1974 ACTACAAGAAGTTTGCTTACTCGCTAAGCCTTGGAGATAACCGTCTTGACATTTTCCGCT 2033
Query 974 CACGTGTCGATGAGGAAGATGAGTTGGGCTTCTAG 1008
|| ||||||||||| | ||||| ||||||||||||
Sbjct 2034 CATGTGTCGATGAGCATGATGAATTGGGCTTCTAG 2068
> AT3G17200.1 | Symbols: | transposable element gene | chr3:5869723-5870852
FORWARD LENGTH=1130
Length=1130
Score = 161 bits (87), Expect = 1e-38
Identities = 101/108 (94%), Gaps = 0/108 (0%)
Strand=Plus/Plus
Query 1 ATGGTGAAGGAGTCCCAGAAAATCGTGGCCCTAGATCAAGACATACCCGTGATAGACATG 60
|||||||||||||||||||||||||||||| ||||||||||||| ||||||||||| |||
Sbjct 97 ATGGTGAAGGAGTCCCAGAAAATCGTGGCCGTAGATCAAGACATTCCCGTGATAGATATG 156
Query 61 TCCCAAGAGAGGTTACGAGTGTCCATGCAGATAGTTAAAGCTTGCGAG 108
||| |||||||| ||||||||||||||||||||| ||||||||||||
Sbjct 157 TCCTTAGAGAGGTCACGAGTGTCCATGCAGATAGTAAAAGCTTGCGAG 204
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 49380166501
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