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= 2419417.2.5
(733 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|AL505468.1|AL505468 AL505468 Hordeum vulgare Barke roots... 323 5e-087
gb|BF254222.2|BF254222 HVSMEf0003F20f Hordeum vulgare seedl... 76 2e-012
gb|BQ661086.1|BQ661086 HM01N16w HM Hordeum vulgare subsp. v... 48 4e-004
gb|BQ764256.1|BQ764256 EBan01_SQ005_G11_R anther, yellow st... 48 4e-004
gb|CA023147.1|CA023147 HZ45F22r HZ Hordeum vulgare subsp. v... 44 0.006
gb|BM442911.1|BM442911 EBro02_SQ001_N04_R root, 3 week, hyd... 40 0.100
gb|BQ458544.1|BQ458544 HA04O20r HA Hordeum vulgare subsp. v... 40 0.100
gb|BQ763356.1|BQ763356 EBro02_SQ008_G06_R root, 3 week, hyd... 40 0.100
gb|BF618929.3|BF618929 HVSMEc0008L20f Hordeum vulgare seedl... 38 0.39
gb|BG366244.2|BG366244 HVSMEi0006G03f Hordeum vulgare 20 DA... 38 0.39
gb|BI779680.2|BI779680 EBem05_SQ001_B04_R embryo, 14 DPA, n... 38 0.39
>gb|AL505468.1|AL505468 AL505468 Hordeum vulgare Barke roots Hordeum vulgare subsp. vulgare
cDNA clone HW08J03V 5', mRNA sequence
Length = 545
Score = 323 bits (163), Expect = 5e-087
Identities = 297/342 (86%)
Strand = Plus / Plus
Query: 11 ctgatgaactatgtcaaggagcggtacaatagcccaacggtttacatcactgaaaatggg 70
||||||||||| |||||| | ||||||| |||||| || | |||||||| ||||| |||
Sbjct: 173 ctgatgaactacgtcaagaacaggtacaacagcccaccgatctacatcaccgaaaacggg 232
Query: 71 atggacgacggcaacagccctttcacctccatccaggacgccctcaaggacagcaagagg 130
||||| ||| |||||||||| |||| || || ||||||| |||||||||| |||||||
Sbjct: 233 atggatgacagcaacagccccttcattgccctcaaggacgcactcaaggacaccaagagg 292
Query: 131 atcaagtaccacaacggctacctcaacaacgttgctgcctccataaaggaggacgggtgt 190
|||||||||||||||| |||||||| ||| | || |||||||||||||||||||||||
Sbjct: 293 atcaagtaccacaacgactacctcaccaatctggccgcctccataaaggaggacgggtgc 352
Query: 191 gacgtgcgtgggtacttcgcgtggtcgttgctggacaactgggaatgggccgccgggtac 250
|||||||| || |||||||||||||| |||||||||||||||| ||||| |||||||||
Sbjct: 353 gacgtgcgcggctacttcgcgtggtctctgctggacaactgggagtgggcggccgggtac 412
Query: 251 acctccagattcgggctctacttcgtggactacaaggataacctcaagaggtaccccaag 310
| ||||| |||||||||||||||||||||||||| || || ||||||||||||||||||
Sbjct: 413 tcgtccaggttcgggctctacttcgtggactacaacgacaagctcaagaggtaccccaag 472
Query: 311 aactcggtccagtggttcaagaccctgctgagctccagctga 352
| |||||| ||| ||||||||| ||| || ||||||||||||
Sbjct: 473 agctcggtgcagnggttcaagagcctcctcagctccagctga 514
>gb|BF254222.2|BF254222 HVSMEf0003F20f Hordeum vulgare seedling root EST library HVcDNA0007
(Etiolated and unstressed) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEf0003F20f, mRNA sequence
Length = 556
Score = 75.8 bits (38), Expect = 2e-012
Identities = 71/82 (86%)
Strand = Plus / Plus
Query: 14 atgaactatgtcaaggagcggtacaatagcccaacggtttacatcactgaaaatgggatg 73
|||||||||||||| || | ||||| | |||||| || |||||||||||||||||||||
Sbjct: 312 atgaactatgtcaaagatagatacaacaccccaactgtctacatcactgaaaatgggatg 371
Query: 74 gacgacggcaacagccctttca 95
|| ||| |||||||||| ||||
Sbjct: 372 gatgacagcaacagccccttca 393
>gb|BQ661086.1|BQ661086 HM01N16w HM Hordeum vulgare subsp. vulgare cDNA clone HM01N16
3-PRIME, mRNA sequence
Length = 580
Score = 48.1 bits (24), Expect = 4e-004
Identities = 27/28 (96%)
Strand = Plus / Minus
Query: 203 tacttcgcgtggtcgttgctggacaact 230
||||||||||||||| ||||||||||||
Sbjct: 361 tacttcgcgtggtcgctgctggacaact 334
>gb|BQ764256.1|BQ764256 EBan01_SQ005_G11_R anther, yellow stage, no treatment, cv Optic,
EBan01 Hordeum vulgare subsp. vulgare cDNA clone
EBan01_SQ005_G11 5', mRNA sequence
Length = 608
Score = 48.1 bits (24), Expect = 4e-004
Identities = 27/28 (96%)
Strand = Plus / Plus
Query: 203 tacttcgcgtggtcgttgctggacaact 230
||||||||||||||| ||||||||||||
Sbjct: 266 tacttcgcgtggtcgctgctggacaact 293
>gb|CA023147.1|CA023147 HZ45F22r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ45F22
5-PRIME, mRNA sequence
Length = 450
Score = 44.1 bits (22), Expect = 0.006
Identities = 34/38 (89%)
Strand = Plus / Plus
Query: 197 cgtgggtacttcgcgtggtcgttgctggacaactggga 234
||||| ||||||| ||||||| |||| |||||||||||
Sbjct: 341 cgtggctacttcgtgtggtcgctgctcgacaactggga 378
>gb|BM442911.1|BM442911 EBro02_SQ001_N04_R root, 3 week, hydroponic grown, low nitrogen, cv
Optic, EBro02 Hordeum vulgare subsp. vulgare cDNA clone
EBro02_SQ001_N04 5', mRNA sequence
Length = 350
Score = 40.1 bits (20), Expect = 0.100
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 486 agaagccgcagccgcagccg 505
||||||||||||||||||||
Sbjct: 86 agaagccgcagccgcagccg 105
>gb|BQ458544.1|BQ458544 HA04O20r HA Hordeum vulgare subsp. vulgare cDNA clone HA04O20
5-PRIME, mRNA sequence
Length = 164
Score = 40.1 bits (20), Expect = 0.100
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 486 agaagccgcagccgcagccg 505
||||||||||||||||||||
Sbjct: 86 agaagccgcagccgcagccg 105
>gb|BQ763356.1|BQ763356 EBro02_SQ008_G06_R root, 3 week, hydroponic grown, low nitrogen, cv
Optic, EBro02 Hordeum vulgare subsp. vulgare cDNA clone
EBro02_SQ008_G06 5', mRNA sequence
Length = 347
Score = 40.1 bits (20), Expect = 0.100
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 486 agaagccgcagccgcagccg 505
||||||||||||||||||||
Sbjct: 83 agaagccgcagccgcagccg 102
>gb|BF618929.3|BF618929 HVSMEc0008L20f Hordeum vulgare seedling shoot EST library
HVcDNA0003 (Etiolated and unstressed) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEc0008L20f, mRNA sequence
Length = 805
Score = 38.2 bits (19), Expect = 0.39
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 489 agccgcagccgcagccgga 507
|||||||||||||||||||
Sbjct: 253 agccgcagccgcagccgga 271
>gb|BG366244.2|BG366244 HVSMEi0006G03f Hordeum vulgare 20 DAP spike EST library HVcDNA0010
(20 DAP) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEi0006G03f, mRNA sequence
Length = 556
Score = 38.2 bits (19), Expect = 0.39
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 489 agccgcagccgcagccgga 507
|||||||||||||||||||
Sbjct: 257 agccgcagccgcagccgga 275
>gb|BI779680.2|BI779680 EBem05_SQ001_B04_R embryo, 14 DPA, no treatment, cv Optic, EBem05
Hordeum vulgare subsp. vulgare cDNA clone
EBem05_SQ001_B04 5', mRNA sequence
Length = 390
Score = 38.2 bits (19), Expect = 0.39
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 489 agccgcagccgcagccgga 507
|||||||||||||||||||
Sbjct: 265 agccgcagccgcagccgga 283
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: 72,806
Number of Sequences: 312970
Number of extensions: 72806
Number of successful extensions: 24320
Number of sequences better than 0.5: 11
Number of HSP's better than 0.5 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 24291
Number of HSP's gapped (non-prelim): 27
length of query: 733
length of database: 175,134,539
effective HSP length: 19
effective length of query: 714
effective length of database: 169,188,109
effective search space: 120800309826
effective search space used: 120800309826
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)