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= 3115147.2.2
(1310 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BM442182.2|BM442182 EBan01_SQ002_H09_R anther, yellow st... 86 3e-015
gb|CA029858.1|CA029858 HX05G15r HX Hordeum vulgare subsp. v... 58 8e-007
gb|BM375902.2|BM375902 EBem06_SQ004_L18_R embryo, 21 DPA, n... 42 0.046
gb|BG368928.1|BG368928 HVSMEi0021F15f Hordeum vulgare 20 DA... 40 0.18
gb|BI956622.1|BI956622 HVSMEn0004H21f Hordeum vulgare rachi... 40 0.18
gb|BI958111.1|BI958111 HVSMEn0013H06f Hordeum vulgare rachi... 40 0.18
gb|CA002715.1|CA002715 HS08F02r HS Hordeum vulgare subsp. v... 40 0.18
>gb|BM442182.2|BM442182 EBan01_SQ002_H09_R anther, yellow stage, no treatment, cv Optic,
EBan01 Hordeum vulgare subsp. vulgare cDNA clone
EBan01_SQ002_H09 5', mRNA sequence
Length = 687
Score = 85.7 bits (43), Expect = 3e-015
Identities = 70/79 (88%)
Strand = Plus / Plus
Query: 1071 gaagagggtggggtgggcgctggacctcaccgaggcgcaggccaagccattcgtcggcac 1130
||||||||| |||||||| |||| ||||||||||| ||||||||||| ||| | |||||
Sbjct: 241 gaagagggtcgggtgggctgtggatctcaccgaggcccaggccaagcccttcatgggcac 300
Query: 1131 acactacgtcctcggcgac 1149
|||||||||| ||||||||
Sbjct: 301 acactacgtcttcggcgac 319
Score = 58.0 bits (29), Expect = 8e-007
Identities = 44/49 (89%)
Strand = Plus / Plus
Query: 825 catcgagggcgccatcgacaccggcttctcgttcaagaactgcagcatc 873
|||||||||||| ||||| | |||||||||||||||||| |||| ||||
Sbjct: 1 catcgagggcgctatcgagagcggcttctcgttcaagaattgcaccatc 49
>gb|CA029858.1|CA029858 HX05G15r HX Hordeum vulgare subsp. vulgare cDNA clone HX05G15
5-PRIME, mRNA sequence
Length = 638
Score = 58.0 bits (29), Expect = 8e-007
Identities = 68/81 (83%)
Strand = Plus / Plus
Query: 658 caggacacgctgtacgaccacaagggcctgcactacttcaagggctgcctcatccggggc 717
|||||||||||||| |||||| ||||| ||||||| ||||| |||| |||| ||||
Sbjct: 85 caggacacgctgtatgaccacctgggccgccactactacaaggactgctacatcgagggc 144
Query: 718 agcgtcgacttcatcttcggc 738
|||||||||||||||||||
Sbjct: 145 tccgtcgacttcatcttcggc 165
>gb|BM375902.2|BM375902 EBem06_SQ004_L18_R embryo, 21 DPA, no treatment, cv Optic, EBem06
Hordeum vulgare subsp. vulgare cDNA clone
EBem06_SQ004_L18 5', mRNA sequence
Length = 437
Score = 42.1 bits (21), Expect = 0.046
Identities = 21/21 (100%)
Strand = Plus / Plus
Query: 54 cctcctcgccctggcgtccgc 74
|||||||||||||||||||||
Sbjct: 152 cctcctcgccctggcgtccgc 172
>gb|BG368928.1|BG368928 HVSMEi0021F15f Hordeum vulgare 20 DAP spike EST library HVcDNA0010
(20 DAP) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEi0021F15f, mRNA sequence
Length = 907
Score = 40.1 bits (20), Expect = 0.18
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 48 cctcctcctcctcgccctgg 67
||||||||||||||||||||
Sbjct: 423 cctcctcctcctcgccctgg 404
>gb|BI956622.1|BI956622 HVSMEn0004H21f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0004H21f, mRNA sequence
Length = 831
Score = 40.1 bits (20), Expect = 0.18
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 45 gcccctcctcctcctcgccc 64
||||||||||||||||||||
Sbjct: 607 gcccctcctcctcctcgccc 588
>gb|BI958111.1|BI958111 HVSMEn0013H06f Hordeum vulgare rachis EST library HVcDNA0015 (normal)
Hordeum vulgare subsp. vulgare cDNA clone HVSMEn0013H06f,
mRNA sequence
Length = 915
Score = 40.1 bits (20), Expect = 0.18
Identities = 23/24 (95%)
Strand = Plus / Plus
Query: 1063 aagaagaagaagagggtggggtgg 1086
|||||| |||||||||||||||||
Sbjct: 579 aagaaggagaagagggtggggtgg 602
>gb|CA002715.1|CA002715 HS08F02r HS Hordeum vulgare subsp. vulgare cDNA clone HS08F02
5-PRIME, mRNA sequence
Length = 520
Score = 40.1 bits (20), Expect = 0.18
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 171 gaagtccgtcggggacgggg 190
||||||||||||||||||||
Sbjct: 35 gaagtccgtcggggacgggg 16
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: 259,452
Number of Sequences: 312970
Number of extensions: 259452
Number of successful extensions: 87802
Number of sequences better than 0.5: 7
Number of HSP's better than 0.5 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 87786
Number of HSP's gapped (non-prelim): 16
length of query: 1310
length of database: 175,134,539
effective HSP length: 19
effective length of query: 1291
effective length of database: 169,188,109
effective search space: 218421848719
effective search space used: 218421848719
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)