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= Ahg336955
Length=546
Score E
Sequences producing significant alignments: (Bits) Value
AT1G47920.1 | Symbols: | RNI-like superfamily protein | chr1:1... 357 6e-98
AT1G47960.1 | Symbols: C/VIF1, ATC/VIF1 | cell wall / vacuolar ... 195 5e-49
AT1G47950.1 | Symbols: | transposable element gene | chr1:1767... 195 5e-49
> AT1G47920.1 | Symbols: | RNI-like superfamily protein | chr1:17661095-17662394
FORWARD LENGTH=1140
Length=1140
Score = 357 bits (193), Expect = 6e-98
Identities = 381/468 (81%), Gaps = 27/468 (6%)
Strand=Plus/Plus
Query 1 ATGGAACGTGGTTTATTGGAACTACACTTGCACGCATATAGACACTATTTTGA--TATAG 58
||||||||||| || |||||||||||||||||||| | | || | |||| | | |||
Sbjct 1 ATGGAACGTGGATTGTTGGAACTACACTTGCACGCCGA-A-TCA-T-TTTT-ATTTGTAG 55
Query 59 AGACAGAGTTGTTGACGAGCAAGACACTGGTTAAGCTCACACTATCCGGTCTATATGCTA 118
||| ||||||||| |||||||||||||||||||||||||||||||||| | ||||| |
Sbjct 56 AGAGAGAGTTGTTCACGAGCAAGACACTGGTTAAGCTCACACTATCCGCTGGATATGAT- 114
Query 119 TT-GAAG-TCAAGTATGTGTTTTTCCCTGCGCTCAAATCACTTTCTCTATTATCAGTTTT 176
|| |||| | | | ||||||| ||||||||||||||||||||| ||| ||| | | ||
Sbjct 115 TTCGAAGCTGA-GCGTGTGTTTCTCCCTGCGCTCAAATCACTTTATCTCTTAACTGATTC 173
Query 177 AGGGCTTGATTATGACAACTATTGTTCC-CTCCTTGATGGCTGTCCTGCGTTGGAAGAGT 235
||| |||||||||||||| ||||| | |||||||||||||| ||||| ||||||||||
Sbjct 174 CGGGATTGATTATGACAACCATTGT-CGGCTCCTTGATGGCTGCCCTGCTTTGGAAGAGT 232
Query 236 TATACATACGTGATGATGATCTT--TTGGGTTCGCCACGTTGCGGTGC-GTTTGTGAAAA 292
||| ||||||||||| ||||| | ||| | ||||| |||||||| | || |||||||
Sbjct 233 TATTCATACGTGATGCTGATCATGATTG--TCCGCCATGTTGCGGTTCAGTC-GTGAAAA 289
Query 293 GTGCATCTATCAAGCGACTTGTGGTTTTTACTAAT-TGTCCAGATTATAAATAC-GATCA 350
||||||| |||||||||||||||||||| |||| | |||| | | | | || | |||
Sbjct 290 GTGCATCCATCAAGCGACTTGTGGTTTTGGTTAATCT-TCCAAACAAGAGAGACAG-TCA 347
Query 351 CGAAGTAT-CTTGTTTTGAAGCACCAAACCTTGTCTACCTTGACTACTCTAGTTACGTCT 409
||| ||| ||| |||||||||||||| ||||| ||||||||||| |||||||| ||||
Sbjct 348 CGAT-TATGCTTATTTTGAAGCACCAAGTCTTGTGTACCTTGACTATTCTAGTTATGTCT 406
Query 410 TTGAAAAGTATCAGTAT-GTTGCTTTGGATTCGCTTGTTGAGGCCAGG 456
|| | |||||| || |||| ||||||||||||||| || ||||||
Sbjct 407 ACGAGACTTATCAG-ATTGTTGGTTTGGATTCGCTTGTCGAAGCCAGG 453
> AT1G47960.1 | Symbols: C/VIF1, ATC/VIF1 | cell wall / vacuolar
inhibitor of fructosidase 1 | chr1:17681157-17683629 REVERSE
LENGTH=1528
Length=1528
Score = 195 bits (105), Expect = 5e-49
Identities = 173/205 (84%), Gaps = 7/205 (3%)
Strand=Plus/Plus
Query 2 TGGAACGTGGTTTATTGGAACTACACTTGCACG-C-A-TATAGACACTA-TTTTGATATA 57
||||||| |||||| |||||||||||||||||| | | | | ||| | || |||||
Sbjct 1097 TGGAACGCGGTTTACTGGAACTACACTTGCACGCCAACCCCCG-CTCTAGTGTTAATATA 1155
Query 58 GAGACAGAGTTGTTGACGAGCAAGACACTGGTTAAGCTCACACTATCCGGT-CTATATGC 116
|||||||||||||| || ||||||||||||||||||||||||||||| || | |||| |
Sbjct 1156 GAGACAGAGTTGTTAACTAGCAAGACACTGGTTAAGCTCACACTATCAGGCGC-ATATTC 1214
Query 117 TATTGAAGTCAAGTATGTGTTTTTCCCTGCGCTCAAATCACTTTCTCTATTATCAGTTTT 176
| |||||||| || | |||||||||||| |||||||||||||||||||||||||||||
Sbjct 1215 TCTTGAAGTCGAGCGTATGTTTTTCCCTGAGCTCAAATCACTTTCTCTATTATCAGTTTC 1274
Query 177 AGGGCTTGATTATGACAACTATTGT 201
|||||||||| || ||| ||||||
Sbjct 1275 AGGGCTTGATCATCCCAAATATTGT 1299
> AT1G47950.1 | Symbols: | transposable element gene | chr1:17675488-17681953
REVERSE LENGTH=6466
Length=6466
Score = 195 bits (105), Expect = 5e-49
Identities = 173/205 (84%), Gaps = 7/205 (3%)
Strand=Plus/Plus
Query 2 TGGAACGTGGTTTATTGGAACTACACTTGCACG-C-A-TATAGACACTA-TTTTGATATA 57
||||||| |||||| |||||||||||||||||| | | | | ||| | || |||||
Sbjct 366 TGGAACGCGGTTTACTGGAACTACACTTGCACGCCAACCCCCG-CTCTAGTGTTAATATA 424
Query 58 GAGACAGAGTTGTTGACGAGCAAGACACTGGTTAAGCTCACACTATCCGGT-CTATATGC 116
|||||||||||||| || ||||||||||||||||||||||||||||| || | |||| |
Sbjct 425 GAGACAGAGTTGTTAACTAGCAAGACACTGGTTAAGCTCACACTATCAGGCGC-ATATTC 483
Query 117 TATTGAAGTCAAGTATGTGTTTTTCCCTGCGCTCAAATCACTTTCTCTATTATCAGTTTT 176
| |||||||| || | |||||||||||| |||||||||||||||||||||||||||||
Sbjct 484 TCTTGAAGTCGAGCGTATGTTTTTCCCTGAGCTCAAATCACTTTCTCTATTATCAGTTTC 543
Query 177 AGGGCTTGATTATGACAACTATTGT 201
|||||||||| || ||| ||||||
Sbjct 544 AGGGCTTGATCATCCCAAATATTGT 568
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 26171990587
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