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= Ahg952614
Length=354
Score E
Sequences producing significant alignments: (Bits) Value
AT4G06477.1 | Symbols: | transposable element gene | chr4:3060... 279 9e-75
AT5G29890.2 | Symbols: | transposable element gene | chr5:1131... 80.5 1e-14
> AT4G06477.1 | Symbols: | transposable element gene | chr4:3060975-3065294
REVERSE LENGTH=4320
Length=4320
Score = 279 bits (151), Expect = 9e-75
Identities = 205/229 (90%), Gaps = 11/229 (5%)
Strand=Plus/Plus
Query 127 GGCTATCTTTGGGCTTTCCGAAAAGGTATCACATGTCGAGTTTGGCCTCACGGTTTAAAA 186
|||| |||||||||||||||||||||||||||||| | |||||||||||| ||| || ||
Sbjct 3925 GGCTCTCTTTGGGCTTTCCGAAAAGGTATCACATGCCAAGTTTGGCCTCATGGTATAGAA 3984
Query 187 GTTATGGCGTTCCGAAGGTGATAAGTCAT-ACGCAACaaaaaaaaaaagaaaaaGAGGGA 245
||||| | | | | | | | |||| | || ||| ||||||||||| |||||||||||
Sbjct 3985 GTTATAGAG-T-C--A--T-A-AAGTTTTAAC-CAA-AAAAAAAAAAAAAAAAAGAGGGA 4034
Query 246 TGCAACACGAGGACTTCCCGGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAGCACGC 305
||||||||||||| |||||||||||||||||||||||||||||||||| |||||||||||
Sbjct 4035 TGCAACACGAGGAGTTCCCGGGAGGTCACCCATCCTAGTACTACTCTCACCCAAGCACGC 4094
Query 306 TTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATC 354
|||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 4095 TTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATC 4143
Score = 108 bits (58), Expect = 4e-23
Identities = 62/64 (97%), Gaps = 0/64 (0%)
Strand=Plus/Plus
Query 64 AGGGATGCAACACGAGGACTTCCCGGGAGGTCACCCATCCTAGTACTACTCTCGCCCAAG 123
|||||||||||||||||| |||||||||||||||||||||||||||||||||| ||||||
Sbjct 4030 AGGGATGCAACACGAGGAGTTCCCGGGAGGTCACCCATCCTAGTACTACTCTCACCCAAG 4089
Query 124 CACG 127
||||
Sbjct 4090 CACG 4093
Score = 106 bits (57), Expect = 2e-22
Identities = 59/60 (98%), Gaps = 0/60 (0%)
Strand=Plus/Plus
Query 4 CCCAAGCACGCTTAACTGCAGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATC 63
||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct 4084 CCCAAGCACGCTTAACTGCGGAGTTCTGATGGGATCCGGTGCATTAGTGCTGGTATGATC 4143
> AT5G29890.2 | Symbols: | transposable element gene | chr5:11316709-11318967
FORWARD LENGTH=2259
Length=2259
Score = 80.5 bits (43), Expect = 1e-14
Identities = 48/50 (96%), Gaps = 2/50 (4%)
Strand=Plus/Minus
Query 245 ATGCAACACGAGGACTTCCCGGGAGGTCACCCATCCTAGTACTACTCTCG 294
||||||||||||||||||||||||||||| || |||||||||||||||||
Sbjct 52 ATGCAACACGAGGACTTCCCGGGAGGTCA-CC-TCCTAGTACTACTCTCG 5
Score = 80.5 bits (43), Expect = 1e-14
Identities = 48/50 (96%), Gaps = 2/50 (4%)
Strand=Plus/Minus
Query 68 ATGCAACACGAGGACTTCCCGGGAGGTCACCCATCCTAGTACTACTCTCG 117
||||||||||||||||||||||||||||| || |||||||||||||||||
Sbjct 52 ATGCAACACGAGGACTTCCCGGGAGGTCA-CC-TCCTAGTACTACTCTCG 5
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 16588357170
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