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= 3185308.2.2
(697 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BF622346.3|BF622346 HVSMEa0002O08f Hordeum vulgare seedl... 50 1e-004
gb|BF626312.1|BF626312 HVSMEa0018F04f Hordeum vulgare seedl... 46 0.002
gb|BQ768669.1|BQ768669 EBro08_SQ012_H11_R root, 3 week, dro... 46 0.002
gb|AL503556.1|AL503556 AL503556 Hordeum vulgare Barke roots... 44 0.006
gb|BF621546.3|BF621546 HVSMEa0011F20f Hordeum vulgare seedl... 44 0.006
gb|BI958334.1|BI958334 HVSMEn0014H08f Hordeum vulgare rachi... 44 0.006
gb|BI960235.1|BI960235 HVSMEn0023N12f Hordeum vulgare rachi... 44 0.006
gb|BF253497.3|BF253497 HVSMEf0001B16f Hordeum vulgare seedl... 44 0.006
gb|BJ454545.1|BJ454545 BJ454545 K. Sato unpublished cDNA li... 44 0.006
gb|BJ462348.1|BJ462348 BJ462348 K. Sato unpublished cDNA li... 44 0.006
gb|BQ465629.1|BQ465629 HU04D11r HU Hordeum vulgare subsp. v... 44 0.006
gb|BQ762357.1|BQ762357 EBro01_SQ005_H18_R root, 3 week, hyd... 44 0.006
gb|CA005047.1|CA005047 HU12E04u HU Hordeum vulgare subsp. v... 44 0.006
gb|CA006626.1|CA006626 HU05D17r HU Hordeum vulgare subsp. v... 44 0.006
gb|BG368613.1|BG368613 HVSMEi0019P07f Hordeum vulgare 20 DA... 42 0.024
gb|AV916436.1|AV916436 AV916436 K. Sato unpublished cDNA li... 42 0.024
gb|AV917412.1|AV917412 AV917412 K. Sato unpublished cDNA li... 42 0.024
gb|AV922591.1|AV922591 AV922591 K. Sato unpublished cDNA li... 42 0.024
gb|CA001705.1|CA001705 HS05F12r HS Hordeum vulgare subsp. v... 42 0.024
gb|CA025455.1|CA025455 HZ52D12r HZ Hordeum vulgare subsp. v... 42 0.024
gb|CA023510.1|CA023510 HZ46H12r HZ Hordeum vulgare subsp. v... 40 0.095
gb|BG309427.1|BG309427 HVSMEc0010A18f Hordeum vulgare seedl... 38 0.37
gb|AF427791.1| Hordeum vulgare Mla locus, complete sequence 38 0.37
>gb|BF622346.3|BF622346 HVSMEa0002O08f Hordeum vulgare seedling shoot EST library
HVcDNA0001 (Cold stress) Hordeum vulgare subsp. vulgare
cDNA clone HVSMEa0002O08f, mRNA sequence
Length = 844
Score = 50.1 bits (25), Expect = 1e-004
Identities = 28/29 (96%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||||||||||||| ||||||||||||||
Sbjct: 648 cgtccccggcgccggccacgttggtcacc 620
>gb|BF626312.1|BF626312 HVSMEa0018F04f Hordeum vulgare seedling shoot EST library
HVcDNA0001 (Cold stress) Hordeum vulgare subsp. vulgare
cDNA clone HVSMEa0018F04f, mRNA sequence
Length = 773
Score = 46.1 bits (23), Expect = 0.002
Identities = 29/31 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcacc 431
|||||| ||||||||| ||||||||||||||
Sbjct: 588 cacgtcgccggcgccggccacgttggtcacc 558
>gb|BQ768669.1|BQ768669 EBro08_SQ012_H11_R root, 3 week, drought-stressed, cv Optic, EBro08
Hordeum vulgare subsp. vulgare cDNA clone
EBro08_SQ012_H11 5', mRNA sequence
Length = 590
Score = 46.1 bits (23), Expect = 0.002
Identities = 29/31 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcacc 431
|||||| ||||||||| ||||||||||||||
Sbjct: 589 cacgtcgccggcgccggccacgttggtcacc 559
>gb|AL503556.1|AL503556 AL503556 Hordeum vulgare Barke roots Hordeum vulgare subsp. vulgare
cDNA clone HW02J12T 5', mRNA sequence
Length = 700
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 515 cacgtcgccggcgccggccacgttggtcac 486
>gb|BF621546.3|BF621546 HVSMEa0011F20f Hordeum vulgare seedling shoot EST library
HVcDNA0001 (Cold stress) Hordeum vulgare subsp. vulgare
cDNA clone HVSMEa0011F20f, mRNA sequence
Length = 825
Score = 44.1 bits (22), Expect = 0.006
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 648 cgtcgccggcgccgnccacgttggtcacc 620
>gb|BI958334.1|BI958334 HVSMEn0014H08f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0014H08f, mRNA sequence
Length = 634
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 611 cacgtcgccggcgccggccacgttggtcac 582
>gb|BI960235.1|BI960235 HVSMEn0023N12f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0023N12f, mRNA sequence
Length = 667
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 393 cacgtcgccggcgccggccacgttggtcac 364
>gb|BF253497.3|BF253497 HVSMEf0001B16f Hordeum vulgare seedling root EST library HVcDNA0007
(Etiolated and unstressed) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEf0001B16f, mRNA sequence
Length = 574
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 375 cacgtcgccggcgccggccacgttggtcac 346
>gb|BJ454545.1|BJ454545 BJ454545 K. Sato unpublished cDNA library, cv. Akashinriki
vegetative stage leaves Hordeum vulgare subsp. vulgare
cDNA clone baak24n09 5', mRNA sequence
Length = 654
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 312 cacgtcgccggcgccggccacgttggtcac 283
>gb|BJ462348.1|BJ462348 BJ462348 K. Sato unpublished cDNA library, cv. Akashinriki
vegetative stage leaves Hordeum vulgare subsp. vulgare
cDNA clone baak24n09 3', mRNA sequence
Length = 720
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Plus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 455 cacgtcgccggcgccggccacgttggtcac 484
>gb|BQ465629.1|BQ465629 HU04D11r HU Hordeum vulgare subsp. vulgare cDNA clone HU04D11
5-PRIME, mRNA sequence
Length = 625
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 250 cacgtcgccggcgccggccacgttggtcac 221
>gb|BQ762357.1|BQ762357 EBro01_SQ005_H18_R root, 3 week, hydroponic grown, no treatment, cv
Optic, EBro01 Hordeum vulgare subsp. vulgare cDNA clone
EBro01_SQ005_H18 5', mRNA sequence
Length = 535
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 114 cacgtcgccggcgccggccacgttggtcac 85
>gb|CA005047.1|CA005047 HU12E04u HU Hordeum vulgare subsp. vulgare cDNA clone HU12E04
3-PRIME, mRNA sequence
Length = 529
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 236 cacgtcgccggcgccggccacgttggtcac 207
>gb|CA006626.1|CA006626 HU05D17r HU Hordeum vulgare subsp. vulgare cDNA clone HU05D17
5-PRIME, mRNA sequence
Length = 534
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtcac 430
|||||| ||||||||| |||||||||||||
Sbjct: 455 cacgtcgccggcgccggccacgttggtcac 426
>gb|BG368613.1|BG368613 HVSMEi0019P07f Hordeum vulgare 20 DAP spike EST library HVcDNA0010
(20 DAP) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEi0019P07f, mRNA sequence
Length = 619
Score = 42.1 bits (21), Expect = 0.024
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 193 cgtcgccggcgccggccacgttggtcacc 165
>gb|AV916436.1|AV916436 AV916436 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags17d09 5', mRNA sequence
Length = 536
Score = 42.1 bits (21), Expect = 0.024
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 356 cgtcgccggcgccggccacgttggtcacc 328
>gb|AV917412.1|AV917412 AV917412 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags18m24 5', mRNA sequence
Length = 626
Score = 42.1 bits (21), Expect = 0.024
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 167 cgtcgccggcgccggccacgttggtcacc 139
>gb|AV922591.1|AV922591 AV922591 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags18m24 3', mRNA sequence
Length = 701
Score = 42.1 bits (21), Expect = 0.024
Identities = 27/29 (93%)
Strand = Plus / Plus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 615 cgtcgccggcgccggccacgttggtcacc 643
>gb|CA001705.1|CA001705 HS05F12r HS Hordeum vulgare subsp. vulgare cDNA clone HS05F12
5-PRIME, mRNA sequence
Length = 520
Score = 42.1 bits (21), Expect = 0.024
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 430 cgtcgccggcgccggccacgttggtcacc 402
>gb|CA025455.1|CA025455 HZ52D12r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ52D12
5-PRIME, mRNA sequence
Length = 475
Score = 42.1 bits (21), Expect = 0.024
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 403 cgtccccggcgccgcccacgttggtcacc 431
|||| ||||||||| ||||||||||||||
Sbjct: 72 cgtcgccggcgccggccacgttggtcacc 44
>gb|CA023510.1|CA023510 HZ46H12r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ46H12
5-PRIME, mRNA sequence
Length = 429
Score = 40.1 bits (20), Expect = 0.095
Identities = 26/28 (92%)
Strand = Plus / Minus
Query: 401 cacgtccccggcgccgcccacgttggtc 428
|||||| ||||||||| |||||||||||
Sbjct: 350 cacgtcgccggcgccggccacgttggtc 323
>gb|BG309427.1|BG309427 HVSMEc0010A18f Hordeum vulgare seedling shoot EST library
HVcDNA0003 (Etiolated and unstressed) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEc0010A18f, mRNA sequence
Length = 814
Score = 38.2 bits (19), Expect = 0.37
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 61 aatataacaatatgttaat 79
|||||||||||||||||||
Sbjct: 738 aatataacaatatgttaat 756
>gb|AF427791.1| Hordeum vulgare Mla locus, complete sequence
Length = 261265
Score = 38.2 bits (19), Expect = 0.37
Identities = 22/23 (95%)
Strand = Plus / Minus
Query: 130 ctgcatgcatatatatacatata 152
||||||||||||||||| |||||
Sbjct: 138082 ctgcatgcatatatatatatata 138060
Score = 38.2 bits (19), Expect = 0.37
Identities = 22/23 (95%)
Strand = Plus / Minus
Query: 130 ctgcatgcatatatatacatata 152
||||||||||||||||| |||||
Sbjct: 98374 ctgcatgcatatatatatatata 98352
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: 65,025
Number of Sequences: 312970
Number of extensions: 65025
Number of successful extensions: 18430
Number of sequences better than 0.5: 23
Number of HSP's better than 0.5 without gapping: 23
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 18364
Number of HSP's gapped (non-prelim): 66
length of query: 697
length of database: 175,134,539
effective HSP length: 19
effective length of query: 678
effective length of database: 169,188,109
effective search space: 114709537902
effective search space used: 114709537902
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)