BLASTN 2.2.10 [Oct-19-2004]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 5704580.2.1
(721 letters)
Database: At_nucl_with_EST.fasta
1,013,581 sequences; 908,940,872 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|AF479279.1| Arabidopsis thaliana SEC6 (SEC6) mRNA, compl... 105 1e-020
gb|AY046014.1| Arabidopsis thaliana unknown protein (At1g71... 105 1e-020
gb|AY133819.1| Arabidopsis thaliana clone U09918 unknown pr... 105 1e-020
ref|NM_105840.2| Arabidopsis thaliana unknown protein AT1G7... 105 1e-020
gb|AV783152.1|AV783152 AV783152 RAFL5 Arabidopsis thaliana ... 103 4e-020
gb|AC012654.2|F14O23 Arabidopsis thaliana chromosome 1 BAC ... 74 4e-011
gb|AE005173.1| Arabidopsis thaliana chromosome 1, bottom ar... 74 4e-011
ref|NC_003070.5| Arabidopsis thaliana chromosome 1, complet... 74 4e-011
gb|AA712174.1|AA712174 31902 Lambda-PRL2 Arabidopsis thalia... 48 0.002
gb|AV546171.1|AV546171 AV546171 Arabidopsis thaliana roots ... 48 0.002
gb|BP605235.1|BP605235 BP605235 RAFL16 Arabidopsis thaliana... 48 0.002
gb|BP610860.1|BP610860 BP610860 RAFL16 Arabidopsis thaliana... 48 0.002
gb|BH251359.1|BH251359 SALK_011451 Arabidopsis thaliana TDN... 46 0.008
gb|BH750658.1|BH750658 SALK_042085.54.25.x Arabidopsis thal... 46 0.008
gb|BH750659.1|BH750659 SALK_042086.48.40.x Arabidopsis thal... 46 0.008
gb|BH791312.1|BH791312 SALK_059763.54.50.x Arabidopsis thal... 46 0.008
gb|BZ358248.1|BZ358248 SALK_132156.33.80.x Arabidopsis thal... 46 0.008
emb|BX660024.1| Arabidopsis thaliana T-DNA flanking sequenc... 46 0.008
gb|BH633494.1|BH633494 SALK_042675 Arabidopsis thaliana TDN... 42 0.13
gb|AC007478.1|AC007478 Arabidopsis thaliana BAC F15A18 from... 42 0.13
dbj|BA000015.5| Arabidopsis thaliana DNA, chromosome 5, com... 42 0.13
ref|NC_003076.4| Arabidopsis thaliana chromosome 5, complet... 42 0.13
>gb|AF479279.1| Arabidopsis thaliana SEC6 (SEC6) mRNA, complete cds
Length = 2728
Score = 105 bits (53), Expect = 1e-020
Identities = 89/101 (88%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 2100 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 2041
Query: 622 tttatgtagtttttctgagaaaggagatggtcaacatagac 662
|| |||||||||||||||| ||||||||||||||||||||
Sbjct: 2040 ttgatgtagtttttctgagttaggagatggtcaacatagac 2000
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 2329 gttctcatatatctctttgcactcttgtaccacctc 2294
>gb|AY046014.1| Arabidopsis thaliana unknown protein (At1g71820) mRNA, complete cds
Length = 2798
Score = 105 bits (53), Expect = 1e-020
Identities = 89/101 (88%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 2200 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 2141
Query: 622 tttatgtagtttttctgagaaaggagatggtcaacatagac 662
|| |||||||||||||||| ||||||||||||||||||||
Sbjct: 2140 ttgatgtagtttttctgagttaggagatggtcaacatagac 2100
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 2429 gttctcatatatctctttgcactcttgtaccacctc 2394
>gb|AY133819.1| Arabidopsis thaliana clone U09918 unknown protein (At1g71820) mRNA,
complete cds
Length = 2290
Score = 105 bits (53), Expect = 1e-020
Identities = 89/101 (88%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 1931 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 1872
Query: 622 tttatgtagtttttctgagaaaggagatggtcaacatagac 662
|| |||||||||||||||| ||||||||||||||||||||
Sbjct: 1871 ttgatgtagtttttctgagttaggagatggtcaacatagac 1831
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 2160 gttctcatatatctctttgcactcttgtaccacctc 2125
>ref|NM_105840.2| Arabidopsis thaliana unknown protein AT1G71820 mRNA, complete cds
Length = 2904
Score = 105 bits (53), Expect = 1e-020
Identities = 89/101 (88%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 2213 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 2154
Query: 622 tttatgtagtttttctgagaaaggagatggtcaacatagac 662
|| |||||||||||||||| ||||||||||||||||||||
Sbjct: 2153 ttgatgtagtttttctgagttaggagatggtcaacatagac 2113
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 2442 gttctcatatatctctttgcactcttgtaccacctc 2407
>gb|AV783152.1|AV783152 AV783152 RAFL5 Arabidopsis thaliana cDNA clone RAFL05-07-A10 3',
mRNA sequence
Length = 681
Score = 103 bits (52), Expect = 4e-020
Identities = 88/100 (88%)
Strand = Plus / Plus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 582 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 641
Query: 622 tttatgtagtttttctgagaaaggagatggtcaacataga 661
|| |||||||||||||||| |||||||||||||||||||
Sbjct: 642 ttgatgtagtttttctgagttaggagatggtcaacataga 681
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 353 gttctcatatatctctttgcactcttgtaccacctc 388
>gb|AC012654.2|F14O23 Arabidopsis thaliana chromosome 1 BAC F14O23 sequence, complete
sequence
Length = 98471
Score = 73.8 bits (37), Expect = 4e-011
Identities = 67/77 (87%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 75364 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 75305
Query: 622 tttatgtagtttttctg 638
|| ||||||||||||||
Sbjct: 75304 ttgatgtagtttttctg 75288
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 75907 gttctcatatatctctttgcactcttgtaccacct 75873
>gb|AE005173.1| Arabidopsis thaliana chromosome 1, bottom arm complete sequence
Length = 14668883
Score = 73.8 bits (37), Expect = 4e-011
Identities = 67/77 (87%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 11257425 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 11257366
Query: 622 tttatgtagtttttctg 638
|| ||||||||||||||
Sbjct: 11257365 ttgatgtagtttttctg 11257349
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 11257968 gttctcatatatctctttgcactcttgtaccacct 11257934
>ref|NC_003070.5| Arabidopsis thaliana chromosome 1, complete sequence
Length = 30432563
Score = 73.8 bits (37), Expect = 4e-011
Identities = 67/77 (87%)
Strand = Plus / Minus
Query: 562 tccctgaagaaatccataagcacctcttcatctaacctcatcctctctatcgtttcttct 621
||||| ||||||||||| || ||||||||||||| |||||||| || || ||||||||
Sbjct: 27019765 tccctaaagaaatccatgagaacctcttcatctagcctcatccgttcaatagtttcttcc 27019706
Query: 622 tttatgtagtttttctg 638
|| ||||||||||||||
Sbjct: 27019705 ttgatgtagtttttctg 27019689
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 27020308 gttctcatatatctctttgcactcttgtaccacct 27020274
>gb|AA712174.1|AA712174 31902 Lambda-PRL2 Arabidopsis thaliana cDNA clone 182E1T7, mRNA
sequence
Length = 335
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Minus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 181 gttctcatatatctctttgcactcttgtaccacctc 146
>gb|AV546171.1|AV546171 AV546171 Arabidopsis thaliana roots Columbia Arabidopsis thaliana
cDNA clone RZL09g02F 3', mRNA sequence
Length = 441
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 379 gttctcatatatctctttgcactcttgtaccacctc 414
>gb|BP605235.1|BP605235 BP605235 RAFL16 Arabidopsis thaliana cDNA clone RAFL16-66-A21 3',
mRNA sequence
Length = 441
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 406 gttctcatatatctctttgcactcttgtaccacctc 441
>gb|BP610860.1|BP610860 BP610860 RAFL16 Arabidopsis thaliana cDNA clone RAFL16-83-K11 3',
mRNA sequence
Length = 441
Score = 48.1 bits (24), Expect = 0.002
Identities = 33/36 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacctc 368
|||||| |||||||||||||| |||||||| |||||
Sbjct: 382 gttctcatatatctctttgcactcttgtaccacctc 417
>gb|BH251359.1|BH251359 SALK_011451 Arabidopsis thaliana TDNA insertion lines Arabidopsis
thaliana genomic clone SALK_011451, DNA sequence
Length = 413
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 198 gttctcatatatctctttgcactcttgtaccacct 232
>gb|BH750658.1|BH750658 SALK_042085.54.25.x Arabidopsis thaliana TDNA insertion lines
Arabidopsis thaliana genomic clone SALK_042085.54.25.x,
DNA sequence
Length = 360
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 242 gttctcatatatctctttgcactcttgtaccacct 276
>gb|BH750659.1|BH750659 SALK_042086.48.40.x Arabidopsis thaliana TDNA insertion lines
Arabidopsis thaliana genomic clone SALK_042086.48.40.x,
DNA sequence
Length = 435
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 219 gttctcatatatctctttgcactcttgtaccacct 253
>gb|BH791312.1|BH791312 SALK_059763.54.50.x Arabidopsis thaliana TDNA insertion lines
Arabidopsis thaliana genomic clone SALK_059763.54.50.x,
DNA sequence
Length = 342
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 270 gttctcatatatctctttgcactcttgtaccacct 304
>gb|BZ358248.1|BZ358248 SALK_132156.33.80.x Arabidopsis thaliana TDNA insertion lines
Arabidopsis thaliana genomic clone SALK_132156.33.80.x,
DNA sequence
Length = 390
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 318 gttctcatatatctctttgcactcttgtaccacct 352
>emb|BX660024.1| Arabidopsis thaliana T-DNA flanking sequence GK-649H04-023088,
genomic survey sequence
Length = 474
Score = 46.1 bits (23), Expect = 0.008
Identities = 32/35 (91%)
Strand = Plus / Plus
Query: 333 gttctcgtatatctctttgcattcttgtacaacct 367
|||||| |||||||||||||| |||||||| ||||
Sbjct: 91 gttctcatatatctctttgcactcttgtaccacct 125
>gb|BH633494.1|BH633494 SALK_042675 Arabidopsis thaliana TDNA insertion lines Arabidopsis
thaliana genomic clone SALK_042675, DNA sequence
Length = 434
Score = 42.1 bits (21), Expect = 0.13
Identities = 24/25 (96%)
Strand = Plus / Plus
Query: 602 tcctctctatcgtttcttcttttat 626
||||||||||| |||||||||||||
Sbjct: 176 tcctctctatcctttcttcttttat 200
>gb|AC007478.1|AC007478 Arabidopsis thaliana BAC F15A18 from chromosome V near 68.5 cM,
complete sequence
Length = 107931
Score = 42.1 bits (21), Expect = 0.13
Identities = 24/25 (96%)
Strand = Plus / Minus
Query: 602 tcctctctatcgtttcttcttttat 626
||||||||||| |||||||||||||
Sbjct: 68728 tcctctctatcctttcttcttttat 68704
>dbj|BA000015.5| Arabidopsis thaliana DNA, chromosome 5, complete sequence
Length = 23810767
Score = 42.1 bits (21), Expect = 0.13
Identities = 24/25 (96%)
Strand = Plus / Minus
Query: 602 tcctctctatcgtttcttcttttat 626
||||||||||| |||||||||||||
Sbjct: 9224782 tcctctctatcctttcttcttttat 9224758
>ref|NC_003076.4| Arabidopsis thaliana chromosome 5, complete sequence
Length = 26992728
Score = 42.1 bits (21), Expect = 0.13
Identities = 24/25 (96%)
Strand = Plus / Minus
Query: 602 tcctctctatcgtttcttcttttat 626
||||||||||| |||||||||||||
Sbjct: 9759444 tcctctctatcctttcttcttttat 9759420
Database: At_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:09 PM
Number of letters in database: 908,940,872
Number of sequences in database: 1,013,581
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 468,798
Number of Sequences: 1013581
Number of extensions: 468798
Number of successful extensions: 38049
Number of sequences better than 0.5: 22
Number of HSP's better than 0.5 without gapping: 22
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 37141
Number of HSP's gapped (non-prelim): 908
length of query: 721
length of database: 908,940,872
effective HSP length: 20
effective length of query: 701
effective length of database: 888,669,252
effective search space: 622957145652
effective search space used: 622957145652
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 21 (42.1 bits)