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= 3922840.2.1
(683 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BU995861.1|BU995861 HM11J18r HM Hordeum vulgare subsp. v... 170 4e-041
gb|BU996696.1|BU996696 HM14H07r HM Hordeum vulgare subsp. v... 170 4e-041
gb|CB881055.1|CB881055 HM08K06w HM Hordeum vulgare subsp. v... 170 4e-041
gb|BM375547.2|BM375547 EBem06_SQ003_K19_R embryo, 21 DPA, n... 147 6e-034
gb|AV917194.1|AV917194 AV917194 K. Sato unpublished cDNA li... 66 2e-009
gb|BQ458826.1|BQ458826 HA04B17r HA Hordeum vulgare subsp. v... 66 2e-009
gb|BQ656545.1|BQ656545 HA04B17u HA Hordeum vulgare subsp. v... 66 2e-009
gb|BM099601.2|BM099601 EBes01_SQ003_L13_R embryo sac, 4-6 D... 66 2e-009
gb|BU985820.1|BU985820 HF08L16r HF Hordeum vulgare subsp. v... 66 2e-009
gb|BU995569.1|BU995569 HM10K10r HM Hordeum vulgare subsp. v... 66 2e-009
gb|CB879942.1|CB879942 HM05A07w HM Hordeum vulgare subsp. v... 66 2e-009
gb|CB881728.1|CB881728 HM10L09w HM Hordeum vulgare subsp. v... 66 2e-009
gb|BQ753514.1|BQ753514 EBan01_SQ004_H17_R anther, yellow st... 50 1e-004
gb|BQ757347.1|BQ757347 EBem10_SQ003_N02_R embryo, 2 Day ger... 42 0.023
gb|BQ762264.1|BQ762264 EBro01_SQ005_F08_R root, 3 week, hyd... 42 0.023
gb|BQ768727.1|BQ768727 EBro08_SQ012_C16_R root, 3 week, dro... 42 0.023
gb|BU987199.1|BU987199 HF14B10r HF Hordeum vulgare subsp. v... 42 0.023
gb|BU987519.1|BU987519 HF14P16r HF Hordeum vulgare subsp. v... 42 0.023
gb|BU989745.1|BU989745 HF22J09r HF Hordeum vulgare subsp. v... 42 0.023
gb|BU989352.1|BU989352 HF21I03r HF Hordeum vulgare subsp. v... 38 0.37
gb|BU990455.1|BU990455 HF25B18r HF Hordeum vulgare subsp. v... 38 0.37
gb|CV058197.1|CV058197 BNEL35d3 Barley EST endosperm librar... 38 0.37
>gb|BU995861.1|BU995861 HM11J18r HM Hordeum vulgare subsp. vulgare cDNA clone HM11J18
5-PRIME, mRNA sequence
Length = 598
Score = 170 bits (86), Expect = 4e-041
Identities = 149/170 (87%)
Strand = Plus / Minus
Query: 277 gatcacgggcacttgtgctggccgtcgtgggtcttcatgttggcgtagcaggggcagacg 336
||||||||||||||||| |||||||||| || |||||| |||||||||||||||||||
Sbjct: 339 gatcacgggcacttgtggcggccgtcgtgcgtggtcatgtgggcgtagcaggggcagacg 280
Query: 337 tcctcgttgccggaggtgcccggcgggacgcagccgcagcgctggcagcaggtgccgcac 396
||||||||||||| |||||| ||||| ||||||||||||||| ||||||| ||| ||||
Sbjct: 279 tcctcgttgccggcggtgccgggcggcacgcagccgcagcgccggcagcacgtgttgcac 220
Query: 397 gccctcaggcacatcttgggccgccccgacttgctgcaccggtacgagca 446
|||||| ||||| || ||||| | |||||||||||||||| |||||||
Sbjct: 219 gccctcccgcacagattcggccggctcgacttgctgcaccggaacgagca 170
Score = 40.1 bits (20), Expect = 0.093
Identities = 29/32 (90%)
Strand = Plus / Minus
Query: 493 gtggtctccacgaggagcagcaggacgacgag 524
|||||||| || |||||||| |||||||||||
Sbjct: 126 gtggtctcgacaaggagcaggaggacgacgag 95
>gb|BU996696.1|BU996696 HM14H07r HM Hordeum vulgare subsp. vulgare cDNA clone HM14H07
5-PRIME, mRNA sequence
Length = 467
Score = 170 bits (86), Expect = 4e-041
Identities = 149/170 (87%)
Strand = Plus / Minus
Query: 277 gatcacgggcacttgtgctggccgtcgtgggtcttcatgttggcgtagcaggggcagacg 336
||||||||||||||||| |||||||||| || |||||| |||||||||||||||||||
Sbjct: 291 gatcacgggcacttgtggcggccgtcgtgcgtggtcatgtgggcgtagcaggggcagacg 232
Query: 337 tcctcgttgccggaggtgcccggcgggacgcagccgcagcgctggcagcaggtgccgcac 396
||||||||||||| |||||| ||||| ||||||||||||||| ||||||| ||| ||||
Sbjct: 231 tcctcgttgccggcggtgccgggcggcacgcagccgcagcgccggcagcacgtgttgcac 172
Query: 397 gccctcaggcacatcttgggccgccccgacttgctgcaccggtacgagca 446
|||||| ||||| || ||||| | |||||||||||||||| |||||||
Sbjct: 171 gccctcccgcacagattcggccggctcgacttgctgcaccggaacgagca 122
Score = 40.1 bits (20), Expect = 0.093
Identities = 29/32 (90%)
Strand = Plus / Minus
Query: 493 gtggtctccacgaggagcagcaggacgacgag 524
|||||||| || |||||||| |||||||||||
Sbjct: 78 gtggtctcgacaaggagcaggaggacgacgag 47
>gb|CB881055.1|CB881055 HM08K06w HM Hordeum vulgare subsp. vulgare cDNA clone HM08K06
3-PRIME, mRNA sequence
Length = 512
Score = 170 bits (86), Expect = 4e-041
Identities = 149/170 (87%)
Strand = Plus / Plus
Query: 277 gatcacgggcacttgtgctggccgtcgtgggtcttcatgttggcgtagcaggggcagacg 336
||||||||||||||||| |||||||||| || |||||| |||||||||||||||||||
Sbjct: 235 gatcacgggcacttgtggcggccgtcgtgcgtggtcatgtgggcgtagcaggggcagacg 294
Query: 337 tcctcgttgccggaggtgcccggcgggacgcagccgcagcgctggcagcaggtgccgcac 396
||||||||||||| |||||| ||||| ||||||||||||||| ||||||| ||| ||||
Sbjct: 295 tcctcgttgccggcggtgccgggcggcacgcagccgcagcgccggcagcacgtgttgcac 354
Query: 397 gccctcaggcacatcttgggccgccccgacttgctgcaccggtacgagca 446
|||||| ||||| || ||||| | |||||||||||||||| |||||||
Sbjct: 355 gccctcccgcacagattcggccggctcgacttgctgcaccggaacgagca 404
Score = 40.1 bits (20), Expect = 0.093
Identities = 29/32 (90%)
Strand = Plus / Plus
Query: 493 gtggtctccacgaggagcagcaggacgacgag 524
|||||||| || |||||||| |||||||||||
Sbjct: 448 gtggtctcgacaaggagcaggaggacgacgag 479
>gb|BM375547.2|BM375547 EBem06_SQ003_K19_R embryo, 21 DPA, no treatment, cv Optic, EBem06
Hordeum vulgare subsp. vulgare cDNA clone
EBem06_SQ003_K19 5', mRNA sequence
Length = 501
Score = 147 bits (74), Expect = 6e-034
Identities = 146/170 (85%)
Strand = Plus / Minus
Query: 277 gatcacgggcacttgtgctggccgtcgtgggtcttcatgttggcgtagcaggggcagacg 336
||||||||||||||||| |||||| ||| || |||||| ||||||||||||||||||
Sbjct: 350 gatcacgggcacttgtggcggccgttgtgcgtggtcatgtgagcgtagcaggggcagacg 291
Query: 337 tcctcgttgccggaggtgcccggcgggacgcagccgcagcgctggcagcaggtgccgcac 396
||||||||||||| |||||| ||||| |||||| |||||||| ||||||| ||| ||||
Sbjct: 290 tcctcgttgccggcggtgccgggcggcacgcagtcgcagcgccggcagcacgtgttgcac 231
Query: 397 gccctcaggcacatcttgggccgccccgacttgctgcaccggtacgagca 446
||||| ||||| || ||||| | ||||||||||||||||||||||||
Sbjct: 230 gccctgttgcacagattcggccgactcgacttgctgcaccggtacgagca 181
Score = 44.1 bits (22), Expect = 0.006
Identities = 31/34 (91%)
Strand = Plus / Minus
Query: 493 gtggtctccacgaggagcagcaggacgacgagcg 526
|||||||| || |||||||| |||||||||||||
Sbjct: 137 gtggtctcgacaaggagcaggaggacgacgagcg 104
>gb|AV917194.1|AV917194 AV917194 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags8k04 5', mRNA sequence
Length = 515
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 277 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 229
>gb|BQ458826.1|BQ458826 HA04B17r HA Hordeum vulgare subsp. vulgare cDNA clone HA04B17
5-PRIME, mRNA sequence
Length = 514
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 320 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 272
>gb|BQ656545.1|BQ656545 HA04B17u HA Hordeum vulgare subsp. vulgare cDNA clone HA04B17
3-PRIME, mRNA sequence
Length = 515
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Plus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 195 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 243
>gb|BM099601.2|BM099601 EBes01_SQ003_L13_R embryo sac, 4-6 DPA, no treatment, cv Optic,
EBes01 Hordeum vulgare subsp. vulgare cDNA clone
EBes01_SQ003_L13 5', mRNA sequence
Length = 362
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 322 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 274
>gb|BU985820.1|BU985820 HF08L16r HF Hordeum vulgare subsp. vulgare cDNA clone HF08L16
5-PRIME, mRNA sequence
Length = 517
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 326 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 278
>gb|BU995569.1|BU995569 HM10K10r HM Hordeum vulgare subsp. vulgare cDNA clone HM10K10
5-PRIME, mRNA sequence
Length = 587
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 303 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 255
>gb|CB879942.1|CB879942 HM05A07w HM Hordeum vulgare subsp. vulgare cDNA clone HM05A07
3-PRIME, mRNA sequence
Length = 589
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Plus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 286 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 334
>gb|CB881728.1|CB881728 HM10L09w HM Hordeum vulgare subsp. vulgare cDNA clone HM10L09
3-PRIME, mRNA sequence
Length = 602
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Plus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcag 369
||||||||||||| || ||| ||||||| ||||||||||||||||||||
Sbjct: 285 gtagcaggggcaggcgcccttgttgccgtaggtgcccggcgggacgcag 333
>gb|BQ753514.1|BQ753514 EBan01_SQ004_H17_R anther, yellow stage, no treatment, cv Optic,
EBan01 Hordeum vulgare subsp. vulgare cDNA clone
EBan01_SQ004_H17 5', mRNA sequence
Length = 520
Score = 50.1 bits (25), Expect = 1e-004
Identities = 25/25 (100%)
Strand = Plus / Minus
Query: 308 tcttcatgttggcgtagcaggggca 332
|||||||||||||||||||||||||
Sbjct: 304 tcttcatgttggcgtagcaggggca 280
>gb|BQ757347.1|BQ757347 EBem10_SQ003_N02_R embryo, 2 Day germination, no treatment, cv
Optic, EBem10 Hordeum vulgare subsp. vulgare cDNA clone
EBem10_SQ003_N02 5', mRNA sequence
Length = 298
Score = 42.1 bits (21), Expect = 0.023
Identities = 33/37 (89%)
Strand = Plus / Minus
Query: 351 ggtgcccggcgggacgcagccgcagcgctggcagcag 387
|||||| || ||||||||| ||||||||||||||||
Sbjct: 51 ggtgccgggggggacgcagttgcagcgctggcagcag 15
>gb|BQ762264.1|BQ762264 EBro01_SQ005_F08_R root, 3 week, hydroponic grown, no treatment, cv
Optic, EBro01 Hordeum vulgare subsp. vulgare cDNA clone
EBro01_SQ005_F08 5', mRNA sequence
Length = 488
Score = 42.1 bits (21), Expect = 0.023
Identities = 33/37 (89%)
Strand = Plus / Minus
Query: 351 ggtgcccggcgggacgcagccgcagcgctggcagcag 387
|||||| || ||||||||| ||||||||||||||||
Sbjct: 377 ggtgccgggggggacgcagttgcagcgctggcagcag 341
>gb|BQ768727.1|BQ768727 EBro08_SQ012_C16_R root, 3 week, drought-stressed, cv Optic, EBro08
Hordeum vulgare subsp. vulgare cDNA clone
EBro08_SQ012_C16 5', mRNA sequence
Length = 584
Score = 42.1 bits (21), Expect = 0.023
Identities = 33/37 (89%)
Strand = Plus / Minus
Query: 351 ggtgcccggcgggacgcagccgcagcgctggcagcag 387
|||||| || ||||||||| ||||||||||||||||
Sbjct: 389 ggtgccgggggggacgcagttgcagcgctggcagcag 353
>gb|BU987199.1|BU987199 HF14B10r HF Hordeum vulgare subsp. vulgare cDNA clone HF14B10
5-PRIME, mRNA sequence
Length = 577
Score = 42.1 bits (21), Expect = 0.023
Identities = 33/37 (89%)
Strand = Plus / Minus
Query: 351 ggtgcccggcgggacgcagccgcagcgctggcagcag 387
|||||| || ||||||||| ||||||||||||||||
Sbjct: 339 ggtgccgggggggacgcagttgcagcgctggcagcag 303
>gb|BU987519.1|BU987519 HF14P16r HF Hordeum vulgare subsp. vulgare cDNA clone HF14P16
5-PRIME, mRNA sequence
Length = 503
Score = 42.1 bits (21), Expect = 0.023
Identities = 33/37 (89%)
Strand = Plus / Minus
Query: 351 ggtgcccggcgggacgcagccgcagcgctggcagcag 387
|||||| || ||||||||| ||||||||||||||||
Sbjct: 308 ggtgccgggggggacgcagttgcagcgctggcagcag 272
>gb|BU989745.1|BU989745 HF22J09r HF Hordeum vulgare subsp. vulgare cDNA clone HF22J09
5-PRIME, mRNA sequence
Length = 517
Score = 42.1 bits (21), Expect = 0.023
Identities = 33/37 (89%)
Strand = Plus / Minus
Query: 351 ggtgcccggcgggacgcagccgcagcgctggcagcag 387
|||||| || ||||||||| ||||||||||||||||
Sbjct: 339 ggtgccgggggggacgcagttgcagcgctggcagcag 303
>gb|BU989352.1|BU989352 HF21I03r HF Hordeum vulgare subsp. vulgare cDNA clone HF21I03
5-PRIME, mRNA sequence
Length = 397
Score = 38.2 bits (19), Expect = 0.37
Identities = 43/51 (84%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcagcc 371
|||||||||||| |||||| |||||||| || |||| ||| ||||||||
Sbjct: 59 gtagcaggggcactcgtccttgttgccggccgtccccgacggcacgcagcc 9
>gb|BU990455.1|BU990455 HF25B18r HF Hordeum vulgare subsp. vulgare cDNA clone HF25B18
5-PRIME, mRNA sequence
Length = 397
Score = 38.2 bits (19), Expect = 0.37
Identities = 43/51 (84%)
Strand = Plus / Minus
Query: 321 gtagcaggggcagacgtcctcgttgccggaggtgcccggcgggacgcagcc 371
|||||||||||| |||||| |||||||| || |||| ||| ||||||||
Sbjct: 59 gtagcaggggcactcgtccttgttgccggccgtccccgacggcacgcagcc 9
>gb|CV058197.1|CV058197 BNEL35d3 Barley EST endosperm library Hordeum vulgare subsp.
vulgare cDNA clone BNEL35d3 5' similar to ESTs AU082563,
mRNA sequence
Length = 613
Score = 38.2 bits (19), Expect = 0.37
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 522 gagcgagagcgagaagagc 540
|||||||||||||||||||
Sbjct: 58 gagcgagagcgagaagagc 40
Database: Hordeum_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:16 PM
Number of letters in database: 175,134,539
Number of sequences in database: 312,970
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: 84,824
Number of Sequences: 312970
Number of extensions: 84824
Number of successful extensions: 26777
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: 26743
Number of HSP's gapped (non-prelim): 34
length of query: 683
length of database: 175,134,539
effective HSP length: 19
effective length of query: 664
effective length of database: 169,188,109
effective search space: 112340904376
effective search space used: 112340904376
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)