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= QCH17d04.yg.2.1
(637 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BM099511.2|BM099511 EBes01_SQ003_H09_R embryo sac, 4-6 D... 359 7e-098
gb|BM443222.2|BM443222 EBro02_SQ003_D03_R root, 3 week, hyd... 285 9e-076
gb|CA008944.1|CA008944 HU12K09r HU Hordeum vulgare subsp. v... 214 3e-054
gb|CA016096.1|CA016096 HV10C18u HV Hordeum vulgare subsp. v... 204 3e-051
gb|BJ464838.1|BJ464838 BJ464838 K. Sato unpublished cDNA li... 188 2e-046
gb|CA016336.1|CA016336 HV09G16u HV Hordeum vulgare subsp. v... 172 9e-042
gb|CA005005.1|CA005005 HU12K09u HU Hordeum vulgare subsp. v... 165 2e-039
gb|AL500587.1|AL500587 AL500587 Hordeum vulgare Barke roots... 133 8e-030
gb|BQ762639.1|BQ762639 EBro02_SQ004_G14_R root, 3 week, hyd... 38 0.34
>gb|BM099511.2|BM099511 EBes01_SQ003_H09_R embryo sac, 4-6 DPA, no treatment, cv Optic,
EBes01 Hordeum vulgare subsp. vulgare cDNA clone
EBes01_SQ003_H09 5', mRNA sequence
Length = 689
Score = 359 bits (181), Expect = 7e-098
Identities = 388/458 (84%)
Strand = Plus / Minus
Query: 93 catacaggaacgtggttgagggacctaaatttaccgagcactgcggattccaaggctccc 152
|||| |||||| || |||||||| ||||||||| || |||| || || | ||| |||||
Sbjct: 689 catataggaacatgcttgagggagctaaatttatcgtgcacagcagacttcaaagctcct 630
Query: 153 agagttaactggcctgatctcatgtaaatgctctctgacttaaaccgccctctctctcgg 212
| ||||||||| ||||||| | |||||| |||||| |||||||||||||||||||| |
Sbjct: 629 aaagttaactgatctgatcttagataaatgttctctgtcttaaaccgccctctctctctg 570
Query: 213 ataaataagtggtaaattgttccctttttggtggaacagctacaaggacgatttgtaaat 272
| |||||||||||| | |||||| ||||| |||| || ||||| | ||||| |||||
Sbjct: 569 acaaataagtggtatactgttcctcttttgctggagcaactacacgagcgattcataaat 510
Query: 273 tttggagtcctttcctcctttaaatggatcttggtagcaatatgtatacaaagacgacaa 332
|||||||| |||| || ||| ||| ||||| ||||| |||||||||||||| |||||
Sbjct: 509 tttggagttttttcttctttttcatgaatcttcgtagcgatatgtatacaaaggcgacag 450
Query: 333 gatgaatgaaccgctgccatgtcaataagagctttgaaagaatcggatggaccatcatac 392
||||||||||||||||||||||||||||| || ||||||||||| |||||||||||||||
Sbjct: 449 gatgaatgaaccgctgccatgtcaataagtgccttgaaagaatcagatggaccatcatac 390
Query: 393 ttccacctcaaagattgattgaaggcatcagggtttgaagcaatatttttcattgtctta 452
|||||||||||||||||||| || |||||||| ||||| ||||||| ||||||||||||
Sbjct: 389 ttccacctcaaagattgattaaaagcatcaggatttgatgcaatatgtttcattgtcttc 330
Query: 453 gcaactgaagcaacatcatcaagctnnttaatatgtaatattgcgccttctcccggagna 512
||||||||| ||||||||||||| || || ||||||||||| ||||||| |||| |
Sbjct: 329 gcaactgaaatgacatcatcaagctccttgatgtgtaatattgcatcttctcctggagaa 270
Query: 513 aactcttgaatatttggagcaccaacaacaaccggaat 550
|||||||||||||| || || ||||| ||||| |||||
Sbjct: 269 aactcttgaatattcggtgcgccaacgacaactggaat 232
>gb|BM443222.2|BM443222 EBro02_SQ003_D03_R root, 3 week, hydroponic grown, low nitrogen, cv
Optic, EBro02 Hordeum vulgare subsp. vulgare cDNA clone
EBro02_SQ003_D03 5', mRNA sequence
Length = 383
Score = 285 bits (144), Expect = 9e-076
Identities = 300/352 (85%)
Strand = Plus / Minus
Query: 54 tcatccccacctctaatgctcggtggcctttcatccttccatacaggaacgtggttgagg 113
||||||||||||| ||| || | |||||||||||||||||||| |||||| || ||||||
Sbjct: 352 tcatccccacctcgaatacttgatggcctttcatccttccatataggaacatgcttgagg 293
Query: 114 gacctaaatttaccgagcactgcggattccaaggctcccagagttaactggcctgatctc 173
|| ||||||||| || |||| || || | ||| ||||| | ||||||||| |||||||
Sbjct: 292 gagctaaatttatcgtgcacagcagacttcaaagctcctaaagttaactgatctgatctt 233
Query: 174 atgtaaatgctctctgacttaaaccgccctctctctcggataaataagtggtaaattgtt 233
| |||||| |||||| |||||||||||||||||||| || |||||||||||| | ||||
Sbjct: 232 agataaatgttctctgtcttaaaccgccctctctctctgacaaataagtggtatactgtt 173
Query: 234 ccctttttggtggaacagctacaaggacgatttgtaaattttggagtcctttcctccttt 293
|| ||||| |||| || ||||| | ||||| ||||||||||||| |||| || |||
Sbjct: 172 cctcttttgctggagcaactacacgagcgattcataaattttggagttttttcttctttt 113
Query: 294 aaatggatcttggtagcaatatgtatacaaagacgacaagatgaatgaaccgctgccatg 353
||| ||||| ||||| |||||||||||||| ||||| |||||||||||||||||||||
Sbjct: 112 tcatgaatcttcgtagcgatatgtatacaaaggcgacaggatgaatgaaccgctgccatg 53
Query: 354 tcaataagagctttgaaagaatcggatggaccatcatacttccacctcaaag 405
|||||||| || ||||||||||| ||||||||||||||||||||||||||||
Sbjct: 52 tcaataagtgccttgaaagaatcagatggaccatcatacttccacctcaaag 1
>gb|CA008944.1|CA008944 HU12K09r HU Hordeum vulgare subsp. vulgare cDNA clone HU12K09
5-PRIME, mRNA sequence
Length = 551
Score = 214 bits (108), Expect = 3e-054
Identities = 180/205 (87%)
Strand = Plus / Minus
Query: 346 ctgccatgtcaataagagctttgaaagaatcggatggaccatcatacttccacctcaaag 405
|||||||||||||||| || ||||||||||| ||||||||||||||||||||||||||||
Sbjct: 551 ctgccatgtcaataagtgccttgaaagaatcagatggaccatcatacttccacctcaaag 492
Query: 406 attgattgaaggcatcagggtttgaagcaatatttttcattgtcttagcaactgaagcaa 465
||||||| || |||||||| ||||| ||||||| |||||||||||| ||||||||| |
Sbjct: 491 attgattaaaagcatcaggatttgatgcaatatgtttcattgtcttcgcaactgaaatga 432
Query: 466 catcatcaagctnnttaatatgtaatattgcgccttctcccggagnaaactcttgaatat 525
|||||||||||| || || ||||||||||| ||||||| |||| ||||||||||||||
Sbjct: 431 catcatcaagctccttgatgtgtaatattgcatcttctcctggagaaaactcttgaatat 372
Query: 526 ttggagcaccaacaacaaccggaat 550
| || || ||||| ||||| |||||
Sbjct: 371 tcggtgcgccaacgacaactggaat 347
>gb|CA016096.1|CA016096 HV10C18u HV Hordeum vulgare subsp. vulgare cDNA clone HV10C18
3-PRIME, mRNA sequence
Length = 556
Score = 204 bits (103), Expect = 3e-051
Identities = 250/299 (83%)
Strand = Plus / Plus
Query: 54 tcatccccacctctaatgctcggtggcctttcatccttccatacaggaacgtggttgagg 113
||||||||||||| ||| || | |||||||||||||||||||| |||||| || ||||||
Sbjct: 258 tcatccccacctcgaatacttgatggcctttcatccttccatataggaacatgcttgagg 317
Query: 114 gacctaaatttaccgagcactgcggattccaaggctcccagagttaactggcctgatctc 173
|| ||||||||| || |||| || || | ||| ||||| | ||||||||| |||||||
Sbjct: 318 gagctaaatttatcgtgcacagcagacttcaaagctcctaaagttaactgatctgatctt 377
Query: 174 atgtaaatgctctctgacttaaaccgccctctctctcggataaataagtggtaaattgtt 233
| |||||| |||||| |||||||||||||||||||| || |||||||||||| | ||||
Sbjct: 378 agataaatgttctctgtcttaaaccgccctctctctctgacaaataagtggtatactgtt 437
Query: 234 ccctttttggtggaacagctacaaggacgatttgtaaattttggagtcctttcctccttt 293
|| ||||| |||| || ||||| | ||||| ||||||||||||| |||| || |||
Sbjct: 438 cctcttttgctggagcaactacacgagcgattcataaattttggagttttttcttctttt 497
Query: 294 aaatggatcttggtagcaatatgtatacaaagacgacaagatgaatgaaccgctgccat 352
||| ||||| ||||| |||||||||||||| ||||| ||||||||||||||||||||
Sbjct: 498 tcatgaatcttcgtagcgatatgtatacaaaggcgacaggatgaatgaaccgctgccat 556
>gb|BJ464838.1|BJ464838 BJ464838 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags36d24 5', mRNA sequence
Length = 571
Score = 188 bits (95), Expect = 2e-046
Identities = 161/184 (87%)
Strand = Plus / Minus
Query: 367 tgaaagaatcggatggaccatcatacttccacctcaaagattgattgaaggcatcagggt 426
|||||||||| ||||||||||||||||||||||||||||||||||| || |||||||| |
Sbjct: 571 tgaaagaatcagatggaccatcatacttccacctcaaagattgattaaaagcatcaggat 512
Query: 427 ttgaagcaatatttttcattgtcttagcaactgaagcaacatcatcaagctnnttaatat 486
|||| ||||||| |||||||||||| ||||||||| ||||||||||||| || || |
Sbjct: 511 ttgatgcaatatgtttcattgtcttcgcaactgaaatgacatcatcaagctccttgatgt 452
Query: 487 gtaatattgcgccttctcccggagnaaactcttgaatatttggagcaccaacaacaaccg 546
|||||||||| ||||||| |||| ||||||||||||||| || || ||||| ||||| |
Sbjct: 451 gtaatattgcatcttctcctggagaaaactcttgaatattcggtgcgccaacgacaactg 392
Query: 547 gaat 550
||||
Sbjct: 391 gaat 388
>gb|CA016336.1|CA016336 HV09G16u HV Hordeum vulgare subsp. vulgare cDNA clone HV09G16
3-PRIME, mRNA sequence
Length = 540
Score = 172 bits (87), Expect = 9e-042
Identities = 234/283 (82%)
Strand = Plus / Plus
Query: 54 tcatccccacctctaatgctcggtggcctttcatccttccatacaggaacgtggttgagg 113
||||||||||||| ||| || | |||||||||||||||||||| |||||| || ||||||
Sbjct: 258 tcatccccacctcgaatacttgatggcctttcatccttccatataggaacatgcttgagg 317
Query: 114 gacctaaatttaccgagcactgcggattccaaggctcccagagttaactggcctgatctc 173
|| ||||||||| || |||| || || | ||| ||||| | ||||||||| |||||||
Sbjct: 318 gagctaaatttatcgtgcacagcagacttcaaagctcctaaagttaactgatctgatctt 377
Query: 174 atgtaaatgctctctgacttaaaccgccctctctctcggataaataagtggtaaattgtt 233
| |||||| |||||| |||||||||||||||||||| || |||||||||||| | ||||
Sbjct: 378 agataaatgttctctgtcttaaaccgccctctctctctgacaaataagtggtatactgtt 437
Query: 234 ccctttttggtggaacagctacaaggacgatttgtaaattttggagtcctttcctccttt 293
|| ||||| |||| || ||||| | ||||| ||||||||||||| |||| || |||
Sbjct: 438 cctcttttgctggagcaactacacgagcgattcataaattttggagttttttcttctttt 497
Query: 294 aaatggatcttggtagcaatatgtatacaaagacgacaagatg 336
||| ||||| ||||| |||||||||||||| ||||| ||||
Sbjct: 498 tcatgaatcttcgtagcgatatgtatacaaaggcgacaggatg 540
>gb|CA005005.1|CA005005 HU12K09u HU Hordeum vulgare subsp. vulgare cDNA clone HU12K09
3-PRIME, mRNA sequence
Length = 543
Score = 165 bits (83), Expect = 2e-039
Identities = 237/287 (82%), Gaps = 1/287 (0%)
Strand = Plus / Plus
Query: 54 tcatccccacctctaatgctcggtggcctttcatccttccatacaggaacgtggttgagg 113
||||||||||||| ||| || | |||||||||||||||||||| |||||| || ||||||
Sbjct: 257 tcatccccacctcgaatacttgatggcctttcatccttccatataggaacatgcttgagg 316
Query: 114 gacctaaatttaccgagcactgcggattccaaggctcccagagttaactggcctgatctc 173
|| ||||||||| || |||| || || | ||| ||||| | ||||||||| |||||||
Sbjct: 317 gagctaaatttatcgtgcacagcagacttcaaagctcctaaagttaactgatctgatctt 376
Query: 174 atgtaaatgctctctgacttaaaccgccctctctctcggataaataagtggtaaattgtt 233
| |||||| |||||| |||||||||||||||||||| || |||||||||||| | ||||
Sbjct: 377 agataaatgttctctgtcttaaaccgccctctctctctgacaaataagtggtatactgtt 436
Query: 234 ccctttttggtggaacagctacaaggacgatttgtaaattttggagtcctttcctccttt 293
|| ||||| |||| || ||||| | ||||| ||||||||||||| ||| || ||||
Sbjct: 437 cctcttttgctggagcaactacacgagcgattcataaattttggagtttttttcttcttt 496
Query: 294 aa-atggatcttggtagcaatatgtatacaaagacgacaagatgaat 339
||| ||||| ||||| |||||||||||||| ||||| |||||||
Sbjct: 497 ttcatgaatcttcgtagcgatatgtatacaaaggcgacaggatgaat 543
>gb|AL500587.1|AL500587 AL500587 Hordeum vulgare Barke roots Hordeum vulgare subsp. vulgare
cDNA clone HW01C14u 3', mRNA sequence
Length = 526
Score = 133 bits (67), Expect = 8e-030
Identities = 153/182 (84%)
Strand = Plus / Plus
Query: 54 tcatccccacctctaatgctcggtggcctttcatccttccatacaggaacgtggttgagg 113
||||||||||||| ||| || | |||||||||||||||||||| |||||| || ||||||
Sbjct: 299 tcatccccacctcgaatacttgatggcctttcatccttccatataggaacatgcttgagg 358
Query: 114 gacctaaatttaccgagcactgcggattccaaggctcccagagttaactggcctgatctc 173
|| ||||||||| || |||| || || | ||| ||||| | ||||||||| |||||||
Sbjct: 359 gagctaaatttatcgtgcacagcagacttcaaagctcctaaagttaactgatctgatctt 418
Query: 174 atgtaaatgctctctgacttaaaccgccctctctctcggataaataagtggtaaattgtt 233
| |||||| |||||| |||||||||||||||||||| || || ||||||||| | ||||
Sbjct: 419 agataaatgttctctgtcttaaaccgccctctctctctgacaantaagtggtatactgtt 478
Query: 234 cc 235
||
Sbjct: 479 cc 480
>gb|BQ762639.1|BQ762639 EBro02_SQ004_G14_R root, 3 week, hydroponic grown, low nitrogen, cv
Optic, EBro02 Hordeum vulgare subsp. vulgare cDNA clone
EBro02_SQ004_G14 5', mRNA sequence
Length = 387
Score = 38.2 bits (19), Expect = 0.34
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 532 caccaacaacaaccggaat 550
|||||||||||||||||||
Sbjct: 52 caccaacaacaaccggaat 70
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: 50,269
Number of Sequences: 312970
Number of extensions: 50269
Number of successful extensions: 12035
Number of sequences better than 0.5: 9
Number of HSP's better than 0.5 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 12025
Number of HSP's gapped (non-prelim): 10
length of query: 637
length of database: 175,134,539
effective HSP length: 19
effective length of query: 618
effective length of database: 169,188,109
effective search space: 104558251362
effective search space used: 104558251362
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)