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= 3642920.2.1
(570 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BU988833.1|BU988833 HF18N17r HF Hordeum vulgare subsp. v... 174 2e-042
gb|CB883229.1|CB883229 HQ01J14w HQ Hordeum vulgare subsp. v... 96 2e-018
gb|BU989007.1|BU989007 HF19H07r HF Hordeum vulgare subsp. v... 94 6e-018
gb|AV833846.1|AV833846 AV833846 K. Sato unpublished cDNA li... 62 2e-008
gb|BE060385.2|BE060385 HVSMEg0012C17f Hordeum vulgare pre-a... 42 0.019
gb|BG343589.1|BG343589 HVSMEg0006H13f Hordeum vulgare pre-a... 42 0.019
gb|AV916779.1|AV916779 AV916779 K. Sato unpublished cDNA li... 42 0.019
gb|AV922076.1|AV922076 AV922076 K. Sato unpublished cDNA li... 42 0.019
gb|CA032293.1|CA032293 HX12J15r HX Hordeum vulgare subsp. v... 42 0.019
gb|BI956176.1|BI956176 HVSMEm0025O15f Hordeum vulgare green... 40 0.077
gb|BI777829.2|BI777829 EBro08_SQ002_D17_R root, 3 week, dro... 40 0.077
gb|CA018769.1|CA018769 HV09J15r HV Hordeum vulgare subsp. v... 40 0.077
gb|BG416805.1|BG416805 HVSMEk0014J23f Hordeum vulgare testa... 38 0.30
>gb|BU988833.1|BU988833 HF18N17r HF Hordeum vulgare subsp. vulgare cDNA clone HF18N17
5-PRIME, mRNA sequence
Length = 610
Score = 174 bits (88), Expect = 2e-042
Identities = 163/188 (86%)
Strand = Plus / Plus
Query: 21 tcagataacatccttgcagcctcagttgtggtcagatcaacaattagatcatcactgaag 80
||||| |||||||||||||| || |||||||||||||||||| ||||||| || |||||
Sbjct: 415 tcagacaacatccttgcagcttcggttgtggtcagatcaacagttagatctgcattgaag 474
Query: 81 cctgagaggattgttttccatgttattactgataaaaagacctatcctgccatgcattca 140
||||||||||| || || ||||| |||||||| || ||||||||||||||||||||||||
Sbjct: 475 cctgagaggatagtctttcatgtcattactgacaagaagacctatcctgccatgcattca 534
Query: 141 tggtttgctttaaattctctcagtcctgctattgttgaggtgaaaggtgttcatcaattt 200
|||||||| || ||| |||| |||||| ||| |||||||||| ||||| || ||||||
Sbjct: 535 tggtttgcattgaatcctctttatcctgccattattgaggtgaagggtgtccaccaattt 594
Query: 201 gattggtt 208
|| |||||
Sbjct: 595 gaatggtt 602
>gb|CB883229.1|CB883229 HQ01J14w HQ Hordeum vulgare subsp. vulgare cDNA clone HQ01J14
3-PRIME, mRNA sequence
Length = 147
Score = 95.6 bits (48), Expect = 2e-018
Identities = 105/124 (84%)
Strand = Plus / Plus
Query: 99 catgttattactgataaaaagacctatcctgccatgcattcatggtttgctttaaattct 158
||||| |||||||| || |||||||||||||||||||||||||||||||| || ||| ||
Sbjct: 12 catgtcattactgacaagaagacctatcctgccatgcattcatggtttgcattgaatcct 71
Query: 159 ctcagtcctgctattgttgaggtgaaaggtgttcatcaatttgattggttaacacaagaa 218
|| |||||| ||| |||||||||| ||||| || || ||||| ||||| || |||||
Sbjct: 72 ctttatcctgccattattgaggtgaagggtgtccaccactttgaatggttgacgaaagaa 131
Query: 219 aatg 222
||||
Sbjct: 132 aatg 135
>gb|BU989007.1|BU989007 HF19H07r HF Hordeum vulgare subsp. vulgare cDNA clone HF19H07
5-PRIME, mRNA sequence
Length = 505
Score = 93.7 bits (47), Expect = 6e-018
Identities = 80/91 (87%)
Strand = Plus / Plus
Query: 21 tcagataacatccttgcagcctcagttgtggtcagatcaacaattagatcatcactgaag 80
||||| |||||||||||||| || |||||||||||||||||| ||||||| || |||||
Sbjct: 415 tcagacaacatccttgcagcttcggttgtggtcagatcaacagttagatctgcattgaag 474
Query: 81 cctgagaggattgttttccatgttattactg 111
||||||||||| || || ||||| |||||||
Sbjct: 475 cctgagaggatagtctttcatgtcattactg 505
>gb|AV833846.1|AV833846 AV833846 K. Sato unpublished cDNA library: Hordeum vulgare subsp.
vulgare shoots germination Hordeum vulgare subsp.
vulgare cDNA clone bags20p21, mRNA sequence
Length = 494
Score = 61.9 bits (31), Expect = 2e-008
Identities = 49/55 (89%)
Strand = Plus / Plus
Query: 514 gcagaggtggagatagttgggtgatgtctaagaggttcaggaattatttaaactt 568
||||||||| ||||| |||||||||||||||| | ||||||| |||||| |||||
Sbjct: 1 gcagaggtgaagataattgggtgatgtctaagcgcttcaggacttatttcaactt 55
>gb|BE060385.2|BE060385 HVSMEg0012C17f Hordeum vulgare pre-anthesis spike EST library
HVcDNA0008 (white to yellow anther) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEg0012C17f, mRNA sequence
Length = 785
Score = 42.1 bits (21), Expect = 0.019
Identities = 27/29 (93%)
Strand = Plus / Plus
Query: 486 gggaaggttaatggcgctgttgagacttg 514
|||||||||||||| ||||| ||||||||
Sbjct: 265 gggaaggttaatggtgctgtagagacttg 293
>gb|BG343589.1|BG343589 HVSMEg0006H13f Hordeum vulgare pre-anthesis spike EST library
HVcDNA0008 (white to yellow anther) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEg0006H13f, mRNA sequence
Length = 1018
Score = 42.1 bits (21), Expect = 0.019
Identities = 27/29 (93%)
Strand = Plus / Plus
Query: 486 gggaaggttaatggcgctgttgagacttg 514
|||||||||||||| ||||| ||||||||
Sbjct: 265 gggaaggttaatggtgctgtagagacttg 293
>gb|AV916779.1|AV916779 AV916779 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags19j21 5', mRNA sequence
Length = 612
Score = 42.1 bits (21), Expect = 0.019
Identities = 27/29 (93%)
Strand = Plus / Plus
Query: 486 gggaaggttaatggcgctgttgagacttg 514
|||||||||||||| ||||| ||||||||
Sbjct: 98 gggaaggttaatggtgctgtagagacttg 126
>gb|AV922076.1|AV922076 AV922076 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags19j21 3', mRNA sequence
Length = 643
Score = 42.1 bits (21), Expect = 0.019
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 486 gggaaggttaatggcgctgttgagacttg 514
|||||||||||||| ||||| ||||||||
Sbjct: 626 gggaaggttaatggtgctgtagagacttg 598
>gb|CA032293.1|CA032293 HX12J15r HX Hordeum vulgare subsp. vulgare cDNA clone HX12J15
5-PRIME, mRNA sequence
Length = 653
Score = 42.1 bits (21), Expect = 0.019
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 486 gggaaggttaatggcgctgttgagacttg 514
|||||||||||||| ||||| ||||||||
Sbjct: 639 gggaaggttaatggtgctgtagagacttg 611
>gb|BI956176.1|BI956176 HVSMEm0025O15f Hordeum vulgare green seedling EST library
HVcDNA0014 (Blumeria infected) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEm0025O15f, mRNA sequence
Length = 674
Score = 40.1 bits (20), Expect = 0.077
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 423 tttcttgatgatgatgttgt 442
||||||||||||||||||||
Sbjct: 46 tttcttgatgatgatgttgt 65
>gb|BI777829.2|BI777829 EBro08_SQ002_D17_R root, 3 week, drought-stressed, cv Optic, EBro08
Hordeum vulgare subsp. vulgare cDNA clone
EBro08_SQ002_D17 5', mRNA sequence
Length = 562
Score = 40.1 bits (20), Expect = 0.077
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 423 tttcttgatgatgatgttgt 442
||||||||||||||||||||
Sbjct: 281 tttcttgatgatgatgttgt 300
>gb|CA018769.1|CA018769 HV09J15r HV Hordeum vulgare subsp. vulgare cDNA clone HV09J15
5-PRIME, mRNA sequence
Length = 586
Score = 40.1 bits (20), Expect = 0.077
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 423 tttcttgatgatgatgttgt 442
||||||||||||||||||||
Sbjct: 350 tttcttgatgatgatgttgt 369
>gb|BG416805.1|BG416805 HVSMEk0014J23f Hordeum vulgare testa/pericarp EST library
HVcDNA0013 (normal) Hordeum vulgare subsp. vulgare cDNA
clone HVSMEk0014J23f, mRNA sequence
Length = 708
Score = 38.2 bits (19), Expect = 0.30
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 55 gatcaacaattagatcatc 73
|||||||||||||||||||
Sbjct: 152 gatcaacaattagatcatc 134
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: 49,913
Number of Sequences: 312970
Number of extensions: 49913
Number of successful extensions: 14267
Number of sequences better than 0.5: 13
Number of HSP's better than 0.5 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 14254
Number of HSP's gapped (non-prelim): 13
length of query: 570
length of database: 175,134,539
effective HSP length: 19
effective length of query: 551
effective length of database: 169,188,109
effective search space: 93222648059
effective search space used: 93222648059
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)