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= 3995470.2.1
(744 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BG310215.2|BG310215 HVSMEc0016H22f Hordeum vulgare seedl... 115 2e-024
gb|CA028410.1|CA028410 HZ61O22r HZ Hordeum vulgare subsp. v... 115 2e-024
gb|AW982369.2|AW982369 HVSMEg0003B10f Hordeum vulgare pre-a... 107 5e-022
gb|AV915714.1|AV915714 AV915714 K. Sato unpublished cDNA li... 107 5e-022
gb|BJ463901.1|BJ463901 BJ463901 K. Sato unpublished cDNA li... 107 5e-022
gb|BQ463250.1|BQ463250 HI04I09r HI Hordeum vulgare subsp. v... 88 5e-016
gb|BQ753958.1|BQ753958 EBca01_SQ002_G05_R carpel, pre-anthe... 88 5e-016
gb|AL503144.1|AL503144 AL503144 Hordeum vulgare Barke roots... 66 2e-009
gb|AL505896.1|AL505896 AL505896 Hordeum vulgare Barke roots... 66 2e-009
gb|CA029322.1|CA029322 HZ64N20r HZ Hordeum vulgare subsp. v... 64 7e-009
gb|BI957580.1|BI957580 HVSMEn0010D12f Hordeum vulgare rachi... 38 0.40
gb|BG416051.1|BG416051 HVSMEk0009J09f Hordeum vulgare testa... 38 0.40
gb|BQ463076.1|BQ463076 HI02P10r HI Hordeum vulgare subsp. v... 38 0.40
gb|BU994615.1|BU994615 HM07K05r HM Hordeum vulgare subsp. v... 38 0.40
>gb|BG310215.2|BG310215 HVSMEc0016H22f Hordeum vulgare seedling shoot EST library
HVcDNA0003 (Etiolated and unstressed) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEc0016H22f, mRNA sequence
Length = 845
Score = 115 bits (58), Expect = 2e-024
Identities = 186/228 (81%), Gaps = 3/228 (1%)
Strand = Plus / Plus
Query: 106 cgacgacgagatcaacgagctgatctccaagctccaggctctcctcccggaatcctcacg 165
|||||| |||||||||||||| ||||||||||||||| |||| ||||| | ||| ||
Sbjct: 243 cgacgaggagatcaacgagctcatctccaagctccagtctctgctccccaa---ctctcg 299
Query: 166 ccgccggaacgcgagccggtcgtcggcgtcgaagcttctgaaggagacgtgcgcctacgt 225
|||||| | | |||| | ||||| || ||||||| || |||||||||||| |||| |
Sbjct: 300 ccgccgcggctccagccaggcgtcgacgacgaagctgctcaaggagacgtgcagctacat 359
Query: 226 caagagcctgcaccgggaggtggacgacctctcggagcggctgtcggggctcatggcgac 285
||||||||| ||||||||||||||||||||| || |||||||||| |||||| ||||
Sbjct: 360 caagagcctccaccgggaggtggacgacctcagcgaccggctgtcggacctcatgtcgac 419
Query: 286 catggacaacgacagcccccaggccgagatcatccggagcctcctccg 333
||||||| || | ||| || || ||||||||||| ||| |||||||
Sbjct: 420 catggaccacaatagcgccggagcagagatcatccgcagcatcctccg 467
>gb|CA028410.1|CA028410 HZ61O22r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ61O22
5-PRIME, mRNA sequence
Length = 616
Score = 115 bits (58), Expect = 2e-024
Identities = 186/228 (81%), Gaps = 3/228 (1%)
Strand = Plus / Plus
Query: 106 cgacgacgagatcaacgagctgatctccaagctccaggctctcctcccggaatcctcacg 165
|||||| |||||||||||||| ||||||||||||||| |||| ||||| | ||| ||
Sbjct: 250 cgacgaggagatcaacgagctcatctccaagctccagtctctgctccccaa---ctctcg 306
Query: 166 ccgccggaacgcgagccggtcgtcggcgtcgaagcttctgaaggagacgtgcgcctacgt 225
|||||| | | |||| | ||||| || ||||||| || |||||||||||| |||| |
Sbjct: 307 ccgccgcggctccagccaggcgtcgacgacgaagctgctcaaggagacgtgcagctacat 366
Query: 226 caagagcctgcaccgggaggtggacgacctctcggagcggctgtcggggctcatggcgac 285
||||||||| ||||||||||||||||||||| || |||||||||| |||||| ||||
Sbjct: 367 caagagcctccaccgggaggtggacgacctcagcgaccggctgtcggacctcatgtcgac 426
Query: 286 catggacaacgacagcccccaggccgagatcatccggagcctcctccg 333
||||||| || | ||| || || ||||||||||| ||| |||||||
Sbjct: 427 catggaccacaatagcgccggagcagagatcatccgcagcatcctccg 474
>gb|AW982369.2|AW982369 HVSMEg0003B10f Hordeum vulgare pre-anthesis spike EST library
HVcDNA0008 (white to yellow anther) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEg0003B10f, mRNA sequence
Length = 563
Score = 107 bits (54), Expect = 5e-022
Identities = 87/98 (88%)
Strand = Plus / Plus
Query: 87 gccgacgtggcaggatcagcgacgacgagatcaacgagctgatctccaagctccaggctc 146
|||| ||||||||||||| |||||| |||||||||||||| ||||||||||| ||||| |
Sbjct: 134 gccgccgtggcaggatcaccgacgaggagatcaacgagctcatctccaagcttcaggccc 193
Query: 147 tcctcccggaatcctcacgccgccggaacgcgagccgg 184
| |||||||||||||| |||||||| ||||||||||
Sbjct: 194 tgctcccggaatcctcccgccgccgctccgcgagccgg 231
Score = 85.7 bits (43), Expect = 2e-015
Identities = 67/75 (89%)
Strand = Plus / Plus
Query: 184 gtcgtcggcgtcgaagcttctgaaggagacgtgcgcctacgtcaagagcctgcaccggga 243
|||||||||||||||||| |||||||||||||||| ||| |||||||||| |||| |||
Sbjct: 436 gtcgtcggcgtcgaagctgctgaaggagacgtgcgggtacatcaagagccttcaccagga 495
Query: 244 ggtggacgacctctc 258
||| ||||| |||||
Sbjct: 496 ggtcgacgaactctc 510
>gb|AV915714.1|AV915714 AV915714 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags15l14 5', mRNA sequence
Length = 603
Score = 107 bits (54), Expect = 5e-022
Identities = 185/228 (81%), Gaps = 3/228 (1%)
Strand = Plus / Plus
Query: 106 cgacgacgagatcaacgagctgatctccaagctccaggctctcctcccggaatcctcacg 165
|||||| |||||||||||||| ||||||||||||||| |||| ||||| | ||| ||
Sbjct: 288 cgacgaggagatcaacgagctcatctccaagctccagtctctgctccccaa---ctctcg 344
Query: 166 ccgccggaacgcgagccggtcgtcggcgtcgaagcttctgaaggagacgtgcgcctacgt 225
|||||| | | |||| | ||||| || ||||||| || |||||||||||| |||| |
Sbjct: 345 ccgccgcggctccagccaggcgtcgacgacgaagctgctcaaggagacgtgcagctacat 404
Query: 226 caagagcctgcaccgggaggtggacgacctctcggagcggctgtcggggctcatggcgac 285
||||||||| ||||||||||||||||||||| || |||||||| | |||||| ||||
Sbjct: 405 caagagcctccaccgggaggtggacgacctcagcgaccggctgtcagacctcatgtcgac 464
Query: 286 catggacaacgacagcccccaggccgagatcatccggagcctcctccg 333
||||||| || | ||| || || ||||||||||| ||| |||||||
Sbjct: 465 catggaccacaatagcgccggagcagagatcatccgcagcatcctccg 512
>gb|BJ463901.1|BJ463901 BJ463901 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags30p15 5', mRNA sequence
Length = 578
Score = 107 bits (54), Expect = 5e-022
Identities = 185/228 (81%), Gaps = 3/228 (1%)
Strand = Plus / Plus
Query: 106 cgacgacgagatcaacgagctgatctccaagctccaggctctcctcccggaatcctcacg 165
|||||| |||||||||||||| ||||||||||||||| |||| ||||| | ||| ||
Sbjct: 264 cgacgaggagatcaacgagctcatctccaagctccagtctctgctccccaa---ctctcg 320
Query: 166 ccgccggaacgcgagccggtcgtcggcgtcgaagcttctgaaggagacgtgcgcctacgt 225
|||||| | | |||| | ||||| || ||||||| || |||||||||||| |||| |
Sbjct: 321 ccgccgcggctccagccaggcgtcgacgacgaagctgctcaaggagacgtgcagctacat 380
Query: 226 caagagcctgcaccgggaggtggacgacctctcggagcggctgtcggggctcatggcgac 285
||||||||| ||||||||||||||||||||| || |||||||| | |||||| ||||
Sbjct: 381 caagagcctccaccgggaggtggacgacctcagcgaccggctgtcagacctcatgtcgac 440
Query: 286 catggacaacgacagcccccaggccgagatcatccggagcctcctccg 333
||||||| || | ||| || || ||||||||||| ||| |||||||
Sbjct: 441 catggaccacaatagcgccggagcagagatcatccgcagcatcctccg 488
>gb|BQ463250.1|BQ463250 HI04I09r HI Hordeum vulgare subsp. vulgare cDNA clone HI04I09
5-PRIME, mRNA sequence
Length = 596
Score = 87.7 bits (44), Expect = 5e-016
Identities = 107/128 (83%)
Strand = Plus / Plus
Query: 206 aaggagacgtgcgcctacgtcaagagcctgcaccgggaggtggacgacctctcggagcgg 265
|||||||||||| |||| |||||||||||||| |||||||||||||||| || ||
Sbjct: 250 aaggagacgtgcagctacatcaagagcctgcacagggaggtggacgacctgagcgaccgc 309
Query: 266 ctgtcggggctcatggcgaccatggacaacgacagcccccaggccgagatcatccggagc 325
|| || | |||||| | |||||||||||| |||||||| |||||||||||||| |||
Sbjct: 310 ctctccgacctcatgtccaccatggacaacaacagccccgccgccgagatcatccgcagc 369
Query: 326 ctcctccg 333
||||||||
Sbjct: 370 ctcctccg 377
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Plus
Query: 113 gagatcaacgagctgatctccaagctccag 142
|||||||||||||| ||||||| |||||||
Sbjct: 148 gagatcaacgagctcatctccaggctccag 177
>gb|BQ753958.1|BQ753958 EBca01_SQ002_G05_R carpel, pre-anthesis, no treatment, cv Optic,
EBca01 Hordeum vulgare subsp. vulgare cDNA clone
EBca01_SQ002_G05 5', mRNA sequence
Length = 673
Score = 87.7 bits (44), Expect = 5e-016
Identities = 107/128 (83%)
Strand = Plus / Plus
Query: 206 aaggagacgtgcgcctacgtcaagagcctgcaccgggaggtggacgacctctcggagcgg 265
|||||||||||| |||| |||||||||||||| |||||||||||||||| || ||
Sbjct: 22 aaggagacgtgcagctacatcaagagcctgcacagggaggtggacgacctgagcgaccgc 81
Query: 266 ctgtcggggctcatggcgaccatggacaacgacagcccccaggccgagatcatccggagc 325
|| || | |||||| | |||||||||||| |||||||| |||||||||||||| |||
Sbjct: 82 ctctccgacctcatgtccaccatggacaacaacagccccgccgccgagatcatccgcagc 141
Query: 326 ctcctccg 333
||||||||
Sbjct: 142 ctcctccg 149
>gb|AL503144.1|AL503144 AL503144 Hordeum vulgare Barke roots Hordeum vulgare subsp. vulgare
cDNA clone HW09N12u 3', mRNA sequence
Length = 560
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Minus
Query: 207 aggagacgtgcgcctacgtcaagagcctgcaccgggaggtggacgacct 255
||||||||||| ||||| ||| |||| ||||||||||||||||||||||
Sbjct: 432 aggagacgtgcacctacatcaggagcttgcaccgggaggtggacgacct 384
>gb|AL505896.1|AL505896 AL505896 Hordeum vulgare Barke roots Hordeum vulgare subsp. vulgare
cDNA clone HW09N12V 5', mRNA sequence
Length = 469
Score = 65.9 bits (33), Expect = 2e-009
Identities = 45/49 (91%)
Strand = Plus / Plus
Query: 207 aggagacgtgcgcctacgtcaagagcctgcaccgggaggtggacgacct 255
||||||||||| ||||| ||| |||| ||||||||||||||||||||||
Sbjct: 313 aggagacgtgcacctacatcaggagcttgcaccgggaggtggacgacct 361
>gb|CA029322.1|CA029322 HZ64N20r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ64N20
5-PRIME, mRNA sequence
Length = 365
Score = 63.9 bits (32), Expect = 7e-009
Identities = 44/48 (91%)
Strand = Plus / Plus
Query: 106 cgacgacgagatcaacgagctgatctccaagctccaggctctcctccc 153
|||||| |||||||||||||| ||||||||||||||| |||| |||||
Sbjct: 241 cgacgaggagatcaacgagctcatctccaagctccagtctctgctccc 288
>gb|BI957580.1|BI957580 HVSMEn0010D12f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0010D12f, mRNA sequence
Length = 672
Score = 38.2 bits (19), Expect = 0.40
Identities = 22/23 (95%)
Strand = Plus / Minus
Query: 168 gccggaacgcgagccggtcgtcg 190
||||||||||||||||| |||||
Sbjct: 484 gccggaacgcgagccggccgtcg 462
>gb|BG416051.1|BG416051 HVSMEk0009J09f Hordeum vulgare testa/pericarp EST library
HVcDNA0013 (normal) Hordeum vulgare subsp. vulgare cDNA
clone HVSMEk0009J09f, mRNA sequence
Length = 965
Score = 38.2 bits (19), Expect = 0.40
Identities = 22/23 (95%)
Strand = Plus / Plus
Query: 388 cgcgcggccgccctcttctgctg 410
|||||||||| ||||||||||||
Sbjct: 107 cgcgcggccggcctcttctgctg 129
>gb|BQ463076.1|BQ463076 HI02P10r HI Hordeum vulgare subsp. vulgare cDNA clone HI02P10
5-PRIME, mRNA sequence
Length = 410
Score = 38.2 bits (19), Expect = 0.40
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 426 gctgccgcagccagcgcag 444
|||||||||||||||||||
Sbjct: 156 gctgccgcagccagcgcag 138
>gb|BU994615.1|BU994615 HM07K05r HM Hordeum vulgare subsp. vulgare cDNA clone HM07K05
5-PRIME, mRNA sequence
Length = 652
Score = 38.2 bits (19), Expect = 0.40
Identities = 22/23 (95%)
Strand = Plus / Minus
Query: 390 cgcggccgccctcttctgctgcc 412
|||||||||||| ||||||||||
Sbjct: 227 cgcggccgccctgttctgctgcc 205
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: 96,722
Number of Sequences: 312970
Number of extensions: 96722
Number of successful extensions: 28731
Number of sequences better than 0.5: 14
Number of HSP's better than 0.5 without gapping: 14
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 28698
Number of HSP's gapped (non-prelim): 29
length of query: 744
length of database: 175,134,539
effective HSP length: 19
effective length of query: 725
effective length of database: 169,188,109
effective search space: 122661379025
effective search space used: 122661379025
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)