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= 3067043.2.1
(834 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BG309831.1|BG309831 HVSMEc0013A09f Hordeum vulgare seedl... 244 4e-063
gb|BF623091.2|BF623091 HVSMEa0014D14f Hordeum vulgare seedl... 92 3e-017
>gb|BG309831.1|BG309831 HVSMEc0013A09f Hordeum vulgare seedling shoot EST library
HVcDNA0003 (Etiolated and unstressed) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEc0013A09f, mRNA sequence
Length = 792
Score = 244 bits (123), Expect = 4e-063
Identities = 336/406 (82%), Gaps = 1/406 (0%)
Strand = Plus / Plus
Query: 19 acgcaaaggctngacattatcaaaagccagaagatgttccattcttccctcaagatctac 78
|||| |||||| |||| ||||||||||||||||||||||||||||| |||||||||| |
Sbjct: 218 acgccaaggctggacactatcaaaagccagaagatgttccattcttgtctcaagatcttc 277
Query: 79 cctcacctctc-tttcctacaaagccttccccaaaggtcttgcacccttttgcttcattg 137
| ||||| | |||||||| || || ||||||||| |||||||||||||||||||
Sbjct: 278 caccacctgtggtttcctaccaaaggttacccaaaggttttgcacccttttgcttcatca 337
Query: 138 gtcaccgtgaatgatgcaatatggaaaatgtattttgatgaattgctcccgttattcact 197
||| |||||||||||||||||||| |||||||| |||||||||| || ||||||||
Sbjct: 338 gtctgtgtgaatgatgcaatatggaagatgtatttcaatgaattgctaccactattcact 397
Query: 198 gttgatggtgatgatggcagctatgcacaaacagttgcactggatttagcgtgtctgcag 257
| ||||| |||||||||| ||||||| ||||||||||| | ||||| || |||||||||
Sbjct: 398 gcggatggcgatgatggcaactatgcagaaacagttgcattagattttgcatgtctgcag 457
Query: 258 gttctatcacaaagaattcatattggtaaatatgttgctgaggtgaagttcaaagacgct 317
| ||| ||| |||||||||| ||| || ||||||||||||||||| |||| ||||||
Sbjct: 458 gctctctcaagaagaattcattgtggcaagtatgttgctgaggtgaaattcagagacgcg 517
Query: 318 cctcaagaatatagtcgactaataaaagaaaaggacagcaattctctgatggatatgctg 377
||||| || ||||| | || |||| | ||||||| |||| |||||||| | | ||
Sbjct: 518 cctcacgattatagcccaccaatacgcgctaaggacaacaatgctctgatgaacttacta 577
Query: 378 acattcaaggctgtggaagagaaggtcaagaagagagtagagaaga 423
||||||| || ||| ||||| ||||||||||| |||||||||||||
Sbjct: 578 acattcacgggtgttgaagaaaaggtcaagaacagagtagagaaga 623
>gb|BF623091.2|BF623091 HVSMEa0014D14f Hordeum vulgare seedling shoot EST library
HVcDNA0001 (Cold stress) Hordeum vulgare subsp. vulgare
cDNA clone HVSMEa0014D14f, mRNA sequence
Length = 903
Score = 91.7 bits (46), Expect = 3e-017
Identities = 96/113 (84%)
Strand = Plus / Plus
Query: 19 acgcaaaggctngacattatcaaaagccagaagatgttccattcttccctcaagatctac 78
|||| |||||| |||| ||||||||||||||||||||||||||||| |||| ||||| |
Sbjct: 192 acgccaaggctggacactatcaaaagccagaagatgttccattcttgtctcacgatcttc 251
Query: 79 cctcacctctctttcctacaaagccttccccaaaggtcttgcacccttttgct 131
| ||||| |||||||||| || || ||||||||| |||||||||| ||||
Sbjct: 252 caccacctgtctttcctaccaaaggttacccaaaggttttgcacccttctgct 304
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: 82,328
Number of Sequences: 312970
Number of extensions: 82328
Number of successful extensions: 21559
Number of sequences better than 0.5: 2
Number of HSP's better than 0.5 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 21554
Number of HSP's gapped (non-prelim): 4
length of query: 834
length of database: 175,134,539
effective HSP length: 19
effective length of query: 815
effective length of database: 169,188,109
effective search space: 137888308835
effective search space used: 137888308835
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)