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= 2521459.2.2
(850 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|AV917519.1|AV917519 AV917519 K. Sato unpublished cDNA li... 145 3e-033
gb|AV912784.1|AV912784 AV912784 K. Sato unpublished cDNA li... 137 7e-031
gb|AV915960.1|AV915960 AV915960 K. Sato unpublished cDNA li... 101 4e-020
gb|AV921077.1|AV921077 AV921077 K. Sato unpublished cDNA li... 94 9e-018
gb|BU995988.1|BU995988 HM12A03r HM Hordeum vulgare subsp. v... 94 9e-018
gb|BF260956.1|BF260956 HVSMEf0023G04f Hordeum vulgare seedl... 56 2e-006
gb|BE060120.2|BE060120 HVSMEg0011I12f Hordeum vulgare pre-a... 48 5e-004
gb|BI952463.1|BI952463 HVSMEm0006I19f Hordeum vulgare green... 40 0.12
>gb|AV917519.1|AV917519 AV917519 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags10e01 3', mRNA sequence
Length = 706
Score = 145 bits (73), Expect = 3e-033
Identities = 235/289 (81%), Gaps = 3/289 (1%)
Strand = Plus / Plus
Query: 328 ctcaatccagcctcctaagcaagtacgcgacctcaacctccttggttagcggcatgattc 387
|||| ||||||||||| |||||||| || |||| || |||||||||||||||||||| |
Sbjct: 342 ctcagtccagcctccttagcaagtatgctacctggacgtccttggttagcggcatgatcc 401
Query: 388 tgtagctgtacagctcggcgaccaagctcggcctgatcttgtagaccggtgggctgccct 447
||| ||||||||| | ||||||| ||| |||||||||||||| || || ||||||
Sbjct: 402 tgttgctgtacagtccagcgaccaggctgggcctgatcttgtacac---aggcatgccct 458
Query: 448 tgtccttagcaccaatgttcacctcttgcccgaagatcttggctttggcctccaccctgt 507
|| | | ||| || ||||||||||| || || || ||||| || |||| ||||||| |
Sbjct: 459 tggcttcagctcctatgttcacctcctgtccaaatatcttagccttggtttccacccgat 518
Query: 508 gttcgacagcacgctccaccgtttnntatgtgagaaggttcatgagttgatcacggtctt 567
|||||| |||||||| ||||| | || ||||| || | ||| |||||||||| ||| |
Sbjct: 519 gttcgatggcacgctcgaccgtctcgtaggtgaggagctgcattagttgatcaccgtcct 578
Query: 568 gggctattatggctggcgtgtaagcttcaggggactcttgaaacttggc 616
| ||| |||| || || ||||||||||||||||||||||||||||||||
Sbjct: 579 gagcttttattgcaggtgtgtaagcttcaggggactcttgaaacttggc 627
>gb|AV912784.1|AV912784 AV912784 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags10e01 5', mRNA sequence
Length = 543
Score = 137 bits (69), Expect = 7e-031
Identities = 272/345 (78%), Gaps = 3/345 (0%)
Strand = Plus / Minus
Query: 366 tccttggttagcggcatgattctgtagctgtacagctcggcgaccaagctcggcctgatc 425
|||||||||||||||||||| |||| ||||||||| | ||||||| ||| |||||||||
Sbjct: 543 tccttggttagcggcatgatcctgttgctgtacagtccagcgaccaggctgggcctgatc 484
Query: 426 ttgtagaccggtgggctgcccttgtccttagcaccaatgttcacctcttgcccgaagatc 485
||||| || || | |||||||| | | ||| || ||||||||||| || || || |||
Sbjct: 483 ttgtacacagg--gcatgcccttggcttcagctcctatgttcacctcctgtccaaatatc 426
Query: 486 ttggctttggcctccaccctgtgttcgacagcacgctcc-accgtttnntatgtgagaag 544
|| || |||| ||||||| ||||||| ||||||||| ||||| | || ||||| ||
Sbjct: 425 ttagccttggtttccacccgatgttcgatggcacgctccgaccgtctcgtaggtgaggag 366
Query: 545 gttcatgagttgatcacggtcttgggctattatggctggcgtgtaagcttcaggggactc 604
| ||| |||||||||| ||| || ||| |||| || || ||||||||||||||||||||
Sbjct: 365 ctgcattagttgatcaccgtcctgagcttttattgcaggtgtgtaagcttcaggggactc 306
Query: 605 ttgaaacttggcnnnnnnnnnaaacttcccatannngatccttctggannnnncctgcaa 664
|||||||||||| |||||||||||| ||| ||| | || |||||||
Sbjct: 305 ttgaaacttggcctctgccacaaacttcccatagtggattcttttagagagtgcctgcaa 246
Query: 665 gcaggttnnntcncaaagagcactggatccagcattaccatcact 709
|||||| || ||||||||||||||||||| ||| ||||||||
Sbjct: 245 gcaggtcgtgtcacaaagagcactggatccagaatttccatcact 201
>gb|AV915960.1|AV915960 AV915960 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags16n12 5', mRNA sequence
Length = 470
Score = 101 bits (51), Expect = 4e-020
Identities = 193/248 (77%)
Strand = Plus / Minus
Query: 462 atgttcacctcttgcccgaagatcttggctttggcctccaccctgtgttcgacagcacgc 521
||||||||||| || || || ||||| || |||| ||||||| ||||||| ||||||
Sbjct: 430 atgttcacctcctgtccaaatatcttagccttggtttccacccgatgttcgatggcacgc 371
Query: 522 tccaccgtttnntatgtgagaaggttcatgagttgatcacggtcttgggctattatggct 581
|| ||||| | || ||||| || | ||| |||||||||| ||| || ||| |||| ||
Sbjct: 370 tcgaccgtctcgtaggtgaggagctgcattagttgatcaccgtcctgagcttttattgca 311
Query: 582 ggcgtgtaagcttcaggggactcttgaaacttggcnnnnnnnnnaaacttcccatannng 641
|| |||||||||||||||||||||||||||||||| |||||||||||| |
Sbjct: 310 ggtgtgtaagcttcaggggactcttgaaacttggcctctgccacaaacttcccatagtgg 251
Query: 642 atccttctggannnnncctgcaagcaggttnnntcncaaagagcactggatccagcatta 701
|| ||| | || ||||||||||||| || ||||||||||||||||||| |||
Sbjct: 250 attcttttagagagtgcctgcaagcaggtcgtgtcacaaagagcactggatccagaattt 191
Query: 702 ccatcact 709
||||||||
Sbjct: 190 ccatcact 183
>gb|AV921077.1|AV921077 AV921077 K. Sato unpublished cDNA library, cv. Haruna Nijo
germination shoots Hordeum vulgare subsp. vulgare cDNA
clone bags16n12 3', mRNA sequence
Length = 428
Score = 93.7 bits (47), Expect = 9e-018
Identities = 89/103 (86%)
Strand = Plus / Plus
Query: 328 ctcaatccagcctcctaagcaagtacgcgacctcaacctccttggttagcggcatgattc 387
|||| ||||||||||| |||||||| || |||| || |||||||||||||||||||| |
Sbjct: 283 ctcagtccagcctccttagcaagtatgctacctggacgtccttggttagcggcatgatcc 342
Query: 388 tgtagctgtacagctcggcgaccaagctcggcctgatcttgta 430
||| ||||||||| | ||||||| ||| ||||||||||||||
Sbjct: 343 tgttgctgtacagtccagcgaccaggctgggcctgatcttgta 385
>gb|BU995988.1|BU995988 HM12A03r HM Hordeum vulgare subsp. vulgare cDNA clone HM12A03
5-PRIME, mRNA sequence
Length = 589
Score = 93.7 bits (47), Expect = 9e-018
Identities = 89/103 (86%)
Strand = Plus / Minus
Query: 328 ctcaatccagcctcctaagcaagtacgcgacctcaacctccttggttagcggcatgattc 387
|||| ||||||||||| |||||||| || |||| || |||||||||||||||||||| |
Sbjct: 243 ctcagtccagcctccttagcaagtatgctacctggacgtccttggttagcggcatgatcc 184
Query: 388 tgtagctgtacagctcggcgaccaagctcggcctgatcttgta 430
||| ||||||||| | ||||||| ||| ||||||||||||||
Sbjct: 183 tgttgctgtacagtccagcgaccaggctgggcctgatcttgta 141
>gb|BF260956.1|BF260956 HVSMEf0023G04f Hordeum vulgare seedling root EST library HVcDNA0007
(Etiolated and unstressed) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEf0023G04f, mRNA sequence
Length = 746
Score = 56.0 bits (28), Expect = 2e-006
Identities = 45/52 (86%)
Strand = Plus / Minus
Query: 658 cctgcaagcaggttnnntcncaaagagcactggatccagcattaccatcact 709
||||||||||||| || ||||||||||||||||||| ||| ||||||||
Sbjct: 742 cctgcaagcaggtcgtgtcacaaagagcactggatccagaatttccatcact 691
>gb|BE060120.2|BE060120 HVSMEg0011I12f Hordeum vulgare pre-anthesis spike EST library
HVcDNA0008 (white to yellow anther) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEg0011I12f, mRNA sequence
Length = 592
Score = 48.1 bits (24), Expect = 5e-004
Identities = 30/32 (93%)
Strand = Plus / Minus
Query: 585 gtgtaagcttcaggggactcttgaaacttggc 616
||||||||||||||| |||||||||||||||
Sbjct: 499 gtgtaagcttcagggacctcttgaaacttggc 468
Score = 40.1 bits (20), Expect = 0.12
Identities = 43/52 (82%)
Strand = Plus / Minus
Query: 658 cctgcaagcaggttnnntcncaaagagcactggatccagcattaccatcact 709
||||||||||||| || |||||||||||| ||| || ||| ||||||||
Sbjct: 426 cctgcaagcaggtcgtgtcacaaagagcactgaatcaagaattcccatcact 375
>gb|BI952463.1|BI952463 HVSMEm0006I19f Hordeum vulgare green seedling EST library
HVcDNA0014 (Blumeria infected) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEm0006I19f, mRNA sequence
Length = 871
Score = 40.1 bits (20), Expect = 0.12
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 682 gagcactggatccagcattaccat 705
|||||||| |||||||||||||||
Sbjct: 441 gagcactgaatccagcattaccat 418
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: 45,344
Number of Sequences: 312970
Number of extensions: 45344
Number of successful extensions: 12906
Number of sequences better than 0.5: 8
Number of HSP's better than 0.5 without gapping: 8
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 12882
Number of HSP's gapped (non-prelim): 23
length of query: 850
length of database: 175,134,539
effective HSP length: 19
effective length of query: 831
effective length of database: 169,188,109
effective search space: 140595318579
effective search space used: 140595318579
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)