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= 3115190.2.2
(1172 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BU995294.1|BU995294 HM09M17r HM Hordeum vulgare subsp. v... 252 2e-065
gb|BM442096.2|BM442096 EBan01_SQ002_C23_R anther, yellow st... 200 7e-050
gb|BU981349.1|BU981349 HA23F03r HA Hordeum vulgare subsp. v... 137 9e-031
gb|BI959076.1|BI959076 HVSMEn0018A17f Hordeum vulgare rachi... 72 5e-011
gb|BI960587.1|BI960587 HVSMEn0025E05f Hordeum vulgare rachi... 56 3e-006
gb|AV915392.1|AV915392 AV915392 K. Sato unpublished cDNA li... 52 4e-005
gb|CA001634.1|CA001634 HS05C08r HS Hordeum vulgare subsp. v... 52 4e-005
gb|BI959049.1|BI959049 HVSMEn0017O16f Hordeum vulgare rachi... 42 0.041
gb|AZ048459.1|AZ048459 PSB125 Barley PstI genomic clones Ho... 40 0.16
>gb|BU995294.1|BU995294 HM09M17r HM Hordeum vulgare subsp. vulgare cDNA clone HM09M17
5-PRIME, mRNA sequence
Length = 585
Score = 252 bits (127), Expect = 2e-065
Identities = 305/361 (84%), Gaps = 5/361 (1%)
Strand = Plus / Plus
Query: 228 cgacggcgacggcatctccctcttctccgccaccaacgtctggatcgaccacatctccat 287
||||||||||||| ||||| || ||||| | | |||||| |||||||||||| | |||||
Sbjct: 114 cgacggcgacggcgtctccatcctctcctcaagcaacgtatggatcgaccacgtgtccat 173
Query: 288 gtccaactgcgaggacggcctcatcgacgtcgtgcag-agctccacggggatcaccatct 346
||||| ||||| |||||||||||||||||||| ||| ||||||| | |||||| |||
Sbjct: 174 gtccacctgcgccgacggcctcatcgacgtcgt-cagcggctccaccgccatcaccgtct 232
Query: 347 ccaactgccacttcaccaaccacaacgacgtcatgctcttcggcgccagcgactcc---t 403
||||| ||||||||||||||||| || ||||||||||||||||||||||| || ||
Sbjct: 233 ccaacagccacttcaccaaccacgaccacgtcatgctcttcggcgccagcaacgcccagg 292
Query: 404 ggccgcaggaccagatcatgcagatcaccgtcgccttcaaccacttcggcaggggcctgg 463
|| ||||||| ||| |||||| ||||||||||||||||||||||||||| |||||| |
Sbjct: 293 agcagcaggacaggatgatgcaggtcaccgtcgccttcaaccacttcggcaagggcctcg 352
Query: 464 tgcagcggatgccaaggtgccgctggggcttcttccacgttgtcaacaacgactacacgc 523
||||||| ||||| | ||||||| |||||||||||||| || ||||||||||||||||
Sbjct: 353 tgcagcgcatgccgcgctgccgcttcggcttcttccacgtcgtgaacaacgactacacgc 412
Query: 524 actggctcatgtacgccattggcggcggcgacgcgccaaccatcatcagccagggcaacc 583
||||| ||||||||||| |||||| | || || ||||||||||||||||| ||||
Sbjct: 413 actggaagatgtacgccatcggcggcaaccgcgaccccaccatcatcagccagggaaacc 472
Query: 584 g 584
|
Sbjct: 473 g 473
>gb|BM442096.2|BM442096 EBan01_SQ002_C23_R anther, yellow stage, no treatment, cv Optic,
EBan01 Hordeum vulgare subsp. vulgare cDNA clone
EBan01_SQ002_C23 5', mRNA sequence
Length = 356
Score = 200 bits (101), Expect = 7e-050
Identities = 161/181 (88%)
Strand = Plus / Plus
Query: 410 aggaccagatcatgcagatcaccgtcgccttcaaccacttcggcaggggcctggtgcagc 469
||||||||||||||||| ||||||||||||||||||||||||| || ||||| ||||||
Sbjct: 9 aggaccagatcatgcaggtcaccgtcgccttcaaccacttcgggagaggcctcgtgcaga 68
Query: 470 ggatgccaaggtgccgctggggcttcttccacgttgtcaacaacgactacacgcactggc 529
| |||||||||||||| ||||| ||||||||||| || |||||||||||||| |||||||
Sbjct: 69 gaatgccaaggtgccgatggggattcttccacgtggtgaacaacgactacacccactggc 128
Query: 530 tcatgtacgccattggcggcggcgacgcgccaaccatcatcagccagggcaaccgctaca 589
||||||||||||| |||||| || | || ||||||||||||||||| ||||||||||
Sbjct: 129 tcatgtacgccatcggcggcagcaagaacccgaccatcatcagccaggggaaccgctaca 188
Query: 590 t 590
|
Sbjct: 189 t 189
Score = 60.0 bits (30), Expect = 2e-007
Identities = 51/58 (87%)
Strand = Plus / Plus
Query: 648 gtggaagaactgggtgtggcacacggaggacgacctgttcatgaacggcgccatcttc 705
|||||||||||||||||||||| || ||||||||||| | |||||| |||| |||||
Sbjct: 250 gtggaagaactgggtgtggcactcgcaggacgacctgctgctgaacgacgccgtcttc 307
>gb|BU981349.1|BU981349 HA23F03r HA Hordeum vulgare subsp. vulgare cDNA clone HA23F03
5-PRIME, mRNA sequence
Length = 509
Score = 137 bits (69), Expect = 9e-031
Identities = 135/157 (85%)
Strand = Plus / Plus
Query: 428 tcaccgtcgccttcaaccacttcggcaggggcctggtgcagcggatgccaaggtgccgct 487
||||||||||||||||||||||||||| |||||| |||||||| ||||| | |||||||
Sbjct: 13 tcaccgtcgccttcaaccacttcggcaagggcctcgtgcagcgcatgccgcgctgccgct 72
Query: 488 ggggcttcttccacgttgtcaacaacgactacacgcactggctcatgtacgccattggcg 547
|||||||||||||| || ||||||||||||||||||||| ||||||||||| ||||
Sbjct: 73 tcggcttcttccacgtcgtgaacaacgactacacgcactggaagatgtacgccatcggcg 132
Query: 548 gcggcgacgcgccaaccatcatcagccagggcaaccg 584
|| | || || ||||||||||||||||| |||||
Sbjct: 133 gcaaccgcgaccccaccatcatcagccagggaaaccg 169
>gb|BI959076.1|BI959076 HVSMEn0018A17f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0018A17f, mRNA sequence
Length = 632
Score = 71.9 bits (36), Expect = 5e-011
Identities = 63/72 (87%)
Strand = Plus / Plus
Query: 34 caggagctgctcatgagcagcgacaagaccatcgacgggcgcggcgcgcaggtgcacatc 93
|||||||| |||||| |||| ||||||||||||||| |||||||| | |||||||||
Sbjct: 258 caggagctcatcatgaacagcttcaagaccatcgacggccgcggcgccaacgtgcacatc 317
Query: 94 gccaacggcgcc 105
||||||||||||
Sbjct: 318 gccaacggcgcc 329
Score = 58.0 bits (29), Expect = 7e-007
Identities = 82/100 (82%)
Strand = Plus / Plus
Query: 217 cgcaccagggccgacggcgacggcatctccctcttctccgccaccaacgtctggatcgac 276
||||||| ||||||||||||| | ||| | ||||| ||||| | |||||||| |||||
Sbjct: 441 cgcaccatcgccgacggcgacgccgtctncatcttcggcgccagccacgtctgggtcgac 500
Query: 277 cacatctccatgtccaactgcgaggacggcctcatcgacg 316
||| |||| | |||||||||| ||||| ||||||||||
Sbjct: 501 cactgctccctctccaactgcgccgacgggctcatcgacg 540
>gb|BI960587.1|BI960587 HVSMEn0025E05f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0025E05f, mRNA sequence
Length = 663
Score = 56.0 bits (28), Expect = 3e-006
Identities = 77/92 (83%), Gaps = 1/92 (1%)
Strand = Plus / Plus
Query: 226 gccgacggcgacggcatctccct-cttctccgccaccaacgtctggatcgaccacatctc 284
||||||||||||| | ||||| | |||| ||||| | |||||||| |||||||| |||
Sbjct: 3 gccgacggcgacgccgtctccatgcttcggcgccagccacgtctgggtcgaccactgctc 62
Query: 285 catgtccaactgcgaggacggcctcatcgacg 316
| | |||||||||| ||||||||||||||||
Sbjct: 63 cctctccaactgcgccgacggcctcatcgacg 94
Score = 52.0 bits (26), Expect = 4e-005
Identities = 77/94 (81%)
Strand = Plus / Plus
Query: 495 cttccacgttgtcaacaacgactacacgcactggctcatgtacgccattggcggcggcga 554
|||||| || || ||||| |||||||| |||||| ||||||||||| || || |||
Sbjct: 273 cttccatgtggtgaacaatgactacactcactgggagatgtacgccatcggaggaagcgc 332
Query: 555 cgcgccaaccatcatcagccagggcaaccgctac 588
|| ||| ||||||| ||||||||| |||||||||
Sbjct: 333 cgagccgaccatcaacagccaggggaaccgctac 366
>gb|AV915392.1|AV915392 AV915392 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags14d11 5', mRNA sequence
Length = 554
Score = 52.0 bits (26), Expect = 4e-005
Identities = 77/94 (81%)
Strand = Plus / Plus
Query: 495 cttccacgttgtcaacaacgactacacgcactggctcatgtacgccattggcggcggcga 554
|||||| || || ||||| |||||||| |||||| ||||||||||| || || |||
Sbjct: 44 cttccatgtggtgaacaatgactacactcactgggagatgtacgccatcggaggaagcgc 103
Query: 555 cgcgccaaccatcatcagccagggcaaccgctac 588
|| ||| ||||||| ||||||||| |||||||||
Sbjct: 104 cgagccgaccatcaacagccaggggaaccgctac 137
>gb|CA001634.1|CA001634 HS05C08r HS Hordeum vulgare subsp. vulgare cDNA clone HS05C08
5-PRIME, mRNA sequence
Length = 521
Score = 52.0 bits (26), Expect = 4e-005
Identities = 77/94 (81%)
Strand = Plus / Plus
Query: 495 cttccacgttgtcaacaacgactacacgcactggctcatgtacgccattggcggcggcga 554
|||||| || || ||||| |||||||| |||||| ||||||||||| || || |||
Sbjct: 30 cttccatgtggtgaacaatgactacactcactgggagatgtacgccatcggaggaagcgc 89
Query: 555 cgcgccaaccatcatcagccagggcaaccgctac 588
|| ||| ||||||| ||||||||| |||||||||
Sbjct: 90 cgagccgaccatcaacagccaggggaaccgctac 123
>gb|BI959049.1|BI959049 HVSMEn0017O16f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0017O16f, mRNA sequence
Length = 684
Score = 42.1 bits (21), Expect = 0.041
Identities = 21/21 (100%)
Strand = Plus / Plus
Query: 85 gtgcacatcgccaacggcgcc 105
|||||||||||||||||||||
Sbjct: 30 gtgcacatcgccaacggcgcc 50
>gb|AZ048459.1|AZ048459 PSB125 Barley PstI genomic clones Hordeum vulgare subsp. vulgare
genomic clone PSB125, DNA sequence
Length = 1051
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 849 gcgtcagaggctgcttcttc 868
||||||||||||||||||||
Sbjct: 734 gcgtcagaggctgcttcttc 715
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: 178,356
Number of Sequences: 312970
Number of extensions: 178356
Number of successful extensions: 53918
Number of sequences better than 0.5: 9
Number of HSP's better than 0.5 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 53887
Number of HSP's gapped (non-prelim): 29
length of query: 1172
length of database: 175,134,539
effective HSP length: 19
effective length of query: 1153
effective length of database: 169,188,109
effective search space: 195073889677
effective search space used: 195073889677
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)