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= QCM14d12.yg.2.1
(593 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BE060794.1|BE060794 HVSMEg0013G05f Hordeum vulgare pre-a... 48 3e-004
gb|BI956967.1|BI956967 HVSMEn0006I08f Hordeum vulgare rachi... 44 0.005
gb|AW982533.3|AW982533 HVSMEg0003I09f Hordeum vulgare pre-a... 44 0.005
gb|BF260649.2|BF260649 HVSMEf0022J05f Hordeum vulgare seedl... 42 0.020
gb|CA015150.1|CA015150 HT13H01r HT Hordeum vulgare subsp. v... 42 0.020
gb|CB882157.1|CB882157 HL01A17w HL Hordeum vulgare subsp. v... 42 0.020
gb|CA019440.1|CA019440 HV11P23r HV Hordeum vulgare subsp. v... 40 0.080
gb|CA024787.1|CA024787 HZ50E24r HZ Hordeum vulgare subsp. v... 40 0.080
gb|BU999035.1|BU999035 HI12P13r HI Hordeum vulgare subsp. v... 38 0.32
>gb|BE060794.1|BE060794 HVSMEg0013G05f Hordeum vulgare pre-anthesis spike EST library
HVcDNA0008 (white to yellow anther) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEg0013G05f, mRNA sequence
Length = 624
Score = 48.1 bits (24), Expect = 3e-004
Identities = 102/128 (79%)
Strand = Plus / Minus
Query: 376 taccattcaggagcccgaggctcgattttgtgtttcttacagaagggaacccattttcgt 435
||||| || ||||| |||||||| || ||| ||||||||||| ||||||||||| |
Sbjct: 194 taccactctggagcacgaggctcaatactgtacttcttacagaaaggaacccatttcttt 135
Query: 436 gcaaatagacatgtttctgtaagtgcttcaaaagtaagcattgcagcaccatcatccgac 495
|||||| | ||||||| | | | |||| || || ||||| |||||||||||||| ||
Sbjct: 134 gcaaattcagatgtttcagacaatccttcgaatgtcagcatggcagcaccatcatcagaa 75
Query: 496 acatagca 503
||||||||
Sbjct: 74 acatagca 67
>gb|BI956967.1|BI956967 HVSMEn0006I08f Hordeum vulgare rachis EST library HVcDNA0015
(normal) Hordeum vulgare subsp. vulgare cDNA clone
HVSMEn0006I08f, mRNA sequence
Length = 898
Score = 44.1 bits (22), Expect = 0.005
Identities = 25/26 (96%)
Strand = Plus / Minus
Query: 283 ttaaattcttcgtattctctcttcat 308
||||||||||| ||||||||||||||
Sbjct: 300 ttaaattcttcatattctctcttcat 275
>gb|AW982533.3|AW982533 HVSMEg0003I09f Hordeum vulgare pre-anthesis spike EST library
HVcDNA0008 (white to yellow anther) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEg0003I09f, mRNA sequence
Length = 854
Score = 44.1 bits (22), Expect = 0.005
Identities = 25/26 (96%)
Strand = Plus / Minus
Query: 283 ttaaattcttcgtattctctcttcat 308
||||||||||| ||||||||||||||
Sbjct: 340 ttaaattcttcatattctctcttcat 315
>gb|BF260649.2|BF260649 HVSMEf0022J05f Hordeum vulgare seedling root EST library HVcDNA0007
(Etiolated and unstressed) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEf0022J05f, mRNA sequence
Length = 804
Score = 42.1 bits (21), Expect = 0.020
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 283 ttaaattcttcgtattctctcttcattgc 311
||||||||||| || ||||||||||||||
Sbjct: 137 ttaaattcttcatactctctcttcattgc 109
>gb|CA015150.1|CA015150 HT13H01r HT Hordeum vulgare subsp. vulgare cDNA clone HT13H01
5-PRIME, mRNA sequence
Length = 526
Score = 42.1 bits (21), Expect = 0.020
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 283 ttaaattcttcgtattctctcttcattgc 311
||||||||||| || ||||||||||||||
Sbjct: 268 ttaaattcttcatactctctcttcattgc 240
>gb|CB882157.1|CB882157 HL01A17w HL Hordeum vulgare subsp. vulgare cDNA clone HL01A17
3-PRIME, mRNA sequence
Length = 652
Score = 42.1 bits (21), Expect = 0.020
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 283 ttaaattcttcgtattctctcttcattgc 311
||||||||||| || ||||||||||||||
Sbjct: 195 ttaaattcttcatactctctcttcattgc 167
>gb|CA019440.1|CA019440 HV11P23r HV Hordeum vulgare subsp. vulgare cDNA clone HV11P23
5-PRIME, mRNA sequence
Length = 619
Score = 40.1 bits (20), Expect = 0.080
Identities = 47/56 (83%)
Strand = Plus / Minus
Query: 376 taccattcaggagcccgaggctcgattttgtgtttcttacagaagggaacccattt 431
||||| || ||||| |||||||| || ||| ||||||||||| |||||||||||
Sbjct: 132 taccactctggagcacgaggctcaatactgtacttcttacagaaaggaacccattt 77
>gb|CA024787.1|CA024787 HZ50E24r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ50E24
5-PRIME, mRNA sequence
Length = 365
Score = 40.1 bits (20), Expect = 0.080
Identities = 47/56 (83%)
Strand = Plus / Minus
Query: 376 taccattcaggagcccgaggctcgattttgtgtttcttacagaagggaacccattt 431
||||| || ||||| |||||||| || ||| ||||||||||| |||||||||||
Sbjct: 243 taccactctggagcacgaggctcaatactgtacttcttacagaaaggaacccattt 188
Score = 40.1 bits (20), Expect = 0.080
Identities = 29/32 (90%)
Strand = Plus / Minus
Query: 472 agcattgcagcaccatcatccgacacatagca 503
||||| |||||||||||||| || ||||||||
Sbjct: 147 agcatggcagcaccatcatcagaaacatagca 116
>gb|BU999035.1|BU999035 HI12P13r HI Hordeum vulgare subsp. vulgare cDNA clone HI12P13
5-PRIME, mRNA sequence
Length = 656
Score = 38.2 bits (19), Expect = 0.32
Identities = 22/23 (95%)
Strand = Plus / Minus
Query: 358 tcaattttctgagcaaaatacca 380
||||||||||||||||| |||||
Sbjct: 188 tcaattttctgagcaaagtacca 166
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: 44,118
Number of Sequences: 312970
Number of extensions: 44118
Number of successful extensions: 12142
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: 12114
Number of HSP's gapped (non-prelim): 28
length of query: 593
length of database: 175,134,539
effective HSP length: 19
effective length of query: 574
effective length of database: 169,188,109
effective search space: 97113974566
effective search space used: 97113974566
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)