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= QAR1e04.yg.2.1
(405 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BM375016.1|BM375016 EBem06_SQ002_B13_R embryo, 21 DPA, n... 174 1e-042
gb|BE421314.1|BE421314 HWM008.A07 ITEC HWM Barley Leaf Libr... 155 1e-036
gb|BM370593.2|BM370593 EBro08_SQ004_L01_R root, 3 week, dro... 54 4e-006
gb|BF258844.2|BF258844 HVSMEf0016N07f Hordeum vulgare seedl... 52 1e-005
gb|BF256602.3|BF256602 HVSMEf0010H12f Hordeum vulgare seedl... 52 1e-005
gb|BQ461023.1|BQ461023 HE01H04r HE Hordeum vulgare subsp. v... 52 1e-005
gb|BM370831.2|BM370831 EBro04_SQ002_G23_R root, 3 week, sal... 52 1e-005
gb|BE519775.3|BE519775 HV_CEb0021C20f Hordeum vulgare seedl... 50 6e-005
gb|BF257531.2|BF257531 HVSMEf0013C16f Hordeum vulgare seedl... 44 0.003
gb|CA031878.1|CA031878 HX11G06r HX Hordeum vulgare subsp. v... 42 0.014
gb|BQ468278.1|BQ468278 HP01L22T HP Hordeum vulgare subsp. v... 40 0.054
gb|BQ661894.1|BQ661894 HP01L22w HP Hordeum vulgare subsp. v... 40 0.054
gb|CA003004.1|CA003004 HS09C04r HS Hordeum vulgare subsp. v... 38 0.21
>gb|BM375016.1|BM375016 EBem06_SQ002_B13_R embryo, 21 DPA, no treatment, cv Optic, EBem06
Hordeum vulgare subsp. vulgare cDNA clone
EBem06_SQ002_B13 5', mRNA sequence
Length = 389
Score = 174 bits (88), Expect = 1e-042
Identities = 195/233 (83%)
Strand = Plus / Minus
Query: 1 aaccaccccatccacctccacggctacgacttctacatcctcgccgagggcttcggcaac 60
|||||||| ||||||||||| ||||||||||||| |||||| || |||||||||||||||
Sbjct: 234 aaccaccctatccacctccatggctacgacttcttcatccttgctgagggcttcggcaac 175
Query: 61 ttcgacgccnnngcggacaccgccagcttcaacatggacgacccgcccatgaggaacacg 120
||||| ||| | |||||||| | |||||| | || ||||| || ||||||||||||
Sbjct: 174 ttcgatgccgccaccgacaccgcaaagttcaacctcgatgacccaccaatgaggaacacg 115
Query: 121 gtgggcgtgccggtcaacggctgggcggtcatccgcttcgtggcggataatcccggggnn 180
|||||||| || || ||||| ||||| |||||||| ||||| || || || || ||||
Sbjct: 114 gtgggcgtcccagtgaacgggtgggctgtcatccggttcgtcgctgacaaccctggggtg 55
Query: 181 nngctcatgcactgccacctggacgtgcacatcacctggggtctcgccatggc 233
||| ||||||||||| ||||| ||||||||||||||||| |||||||||||
Sbjct: 54 tggctgatgcactgccatctggatgtgcacatcacctggggcctcgccatggc 2
>gb|BE421314.1|BE421314 HWM008.A07 ITEC HWM Barley Leaf Library Hordeum vulgare subsp.
vulgare cDNA clone HWM008.A07, mRNA sequence
Length = 905
Score = 155 bits (78), Expect = 1e-036
Identities = 207/251 (82%), Gaps = 1/251 (0%)
Strand = Plus / Plus
Query: 1 aaccaccccatccacctccacggctacgacttctacatcctcgccgagggcttcggcaac 60
||||| ||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 383 aaccatcccatccacctccacggatacgacttctacatcctcgccgagggcttcggcaac 442
Query: 61 ttcgacgccnnngcggacaccgccagcttcaacatggacgacccgcccatgaggaacacg 120
| ||||||| |||| ||| || |||||| | || |||| || |||||| ||
Sbjct: 443 tacgacgccgagaaggacgccgacaagttcaacctcgagaacccacctcagaggaatacc 502
Query: 121 gtgggcgtgccggtcaacggctgggcggtcatccgcttcgtggcggataatcccggggnn 180
|||| |||||||| |||||||||||||||||||| ||| || || || |||||||
Sbjct: 503 gtggcggtgccggtgaacggctgggcggtcatccggttccgcgccgacaa-cccgggggt 561
Query: 181 nngctcatgcactgccacctggacgtgcacatcacctggggtctcgccatggcgttcctg 240
| ||||||||||||| || || ||||||||||||||||| || || |||||||| |||
Sbjct: 562 gtggtcatgcactgccatctcgatgtgcacatcacctggggcctggcaatggcgtttctg 621
Query: 241 gtggaggacgg 251
|||||||||||
Sbjct: 622 gtggaggacgg 632
>gb|BM370593.2|BM370593 EBro08_SQ004_L01_R root, 3 week, drought-stressed, cv Optic, EBro08
Hordeum vulgare subsp. vulgare cDNA clone
EBro08_SQ004_L01 5', mRNA sequence
Length = 655
Score = 54.0 bits (27), Expect = 4e-006
Identities = 45/51 (88%)
Strand = Plus / Plus
Query: 185 tcatgcactgccacctggacgtgcacatcacctggggtctcgccatggcgt 235
|||||||||||||| ||||||||||| ||| |||||| || |||||||||
Sbjct: 393 tcatgcactgccacttggacgtgcacctcagctggggcctgtccatggcgt 443
>gb|BF258844.2|BF258844 HVSMEf0016N07f Hordeum vulgare seedling root EST library HVcDNA0007
(Etiolated and unstressed) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEf0016N07f, mRNA sequence
Length = 965
Score = 52.0 bits (26), Expect = 1e-005
Identities = 32/34 (94%)
Strand = Plus / Plus
Query: 1 aaccaccccatccacctccacggctacgacttct 34
||||||||||||||||||||||||| | ||||||
Sbjct: 119 aaccaccccatccacctccacggcttcaacttct 152
>gb|BF256602.3|BF256602 HVSMEf0010H12f Hordeum vulgare seedling root EST library
HVcDNA0007 (Etiolated and unstressed) Hordeum vulgare
subsp. vulgare cDNA clone HVSMEf0010H12f, mRNA sequence
Length = 667
Score = 52.0 bits (26), Expect = 1e-005
Identities = 32/34 (94%)
Strand = Plus / Plus
Query: 1 aaccaccccatccacctccacggctacgacttct 34
||||||||||||||||||||||||| | ||||||
Sbjct: 64 aaccaccccatccacctccacggcttcaacttct 97
>gb|BQ461023.1|BQ461023 HE01H04r HE Hordeum vulgare subsp. vulgare cDNA clone HE01H04
5-PRIME, mRNA sequence
Length = 463
Score = 52.0 bits (26), Expect = 1e-005
Identities = 32/34 (94%)
Strand = Plus / Plus
Query: 1 aaccaccccatccacctccacggctacgacttct 34
||||||||||||||||||||||||| | ||||||
Sbjct: 285 aaccaccccatccacctccacggcttcaacttct 318
>gb|BM370831.2|BM370831 EBro04_SQ002_G23_R root, 3 week, salt-stressed, cv Optic, EBro04
Hordeum vulgare subsp. vulgare cDNA clone
EBro04_SQ002_G23 5', mRNA sequence
Length = 657
Score = 52.0 bits (26), Expect = 1e-005
Identities = 32/34 (94%)
Strand = Plus / Plus
Query: 1 aaccaccccatccacctccacggctacgacttct 34
||||||||||||||||||||||||| | ||||||
Sbjct: 88 aaccaccccatccacctccacggcttcaacttct 121
>gb|BE519775.3|BE519775 HV_CEb0021C20f Hordeum vulgare seedling green leaf EST library
HVcDNA0005 (Blumeria challenged) Hordeum vulgare subsp.
vulgare cDNA clone HV_CEb0021C20f, mRNA sequence
Length = 699
Score = 50.1 bits (25), Expect = 6e-005
Identities = 37/41 (90%)
Strand = Plus / Plus
Query: 5 accccatccacctccacggctacgacttctacatcctcgcc 45
||||||| |||||||| ||||||||||||| | ||||||||
Sbjct: 635 accccatgcacctccatggctacgacttcttcgtcctcgcc 675
>gb|BF257531.2|BF257531 HVSMEf0013C16f Hordeum vulgare seedling root EST library HVcDNA0007
(Etiolated and unstressed) Hordeum vulgare subsp.
vulgare cDNA clone HVSMEf0013C16f, mRNA sequence
Length = 495
Score = 44.1 bits (22), Expect = 0.003
Identities = 49/58 (84%)
Strand = Plus / Plus
Query: 4 caccccatccacctccacggctacgacttctacatcctcgccgagggcttcggcaact 61
|||||||| ||| ||||||||||| |||||||| | ||||| |||||||||||||
Sbjct: 278 caccccatgcacatccacggctaccacttctacgtgttcgccacaggcttcggcaact 335
>gb|CA031878.1|CA031878 HX11G06r HX Hordeum vulgare subsp. vulgare cDNA clone HX11G06
5-PRIME, mRNA sequence
Length = 624
Score = 42.1 bits (21), Expect = 0.014
Identities = 36/41 (87%)
Strand = Plus / Plus
Query: 89 tcaacatggacgacccgcccatgaggaacacggtgggcgtg 129
|||||| ||| |||||||| ||||||||||||||| ||||
Sbjct: 384 tcaacacggaggacccgccgctgaggaacacggtggtcgtg 424
>gb|BQ468278.1|BQ468278 HP01L22T HP Hordeum vulgare subsp. vulgare cDNA clone HP01L22
5-PRIME, mRNA sequence
Length = 238
Score = 40.1 bits (20), Expect = 0.054
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 261 gatgcagtcactggaggcgc 280
||||||||||||||||||||
Sbjct: 172 gatgcagtcactggaggcgc 191
>gb|BQ661894.1|BQ661894 HP01L22w HP Hordeum vulgare subsp. vulgare cDNA clone HP01L22
3-PRIME, mRNA sequence
Length = 653
Score = 40.1 bits (20), Expect = 0.054
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 261 gatgcagtcactggaggcgc 280
||||||||||||||||||||
Sbjct: 496 gatgcagtcactggaggcgc 477
>gb|CA003004.1|CA003004 HS09C04r HS Hordeum vulgare subsp. vulgare cDNA clone HS09C04
5-PRIME, mRNA sequence
Length = 356
Score = 38.2 bits (19), Expect = 0.21
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 244 gaggacggcgtcggggaga 262
|||||||||||||||||||
Sbjct: 289 gaggacggcgtcggggaga 271
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: 35,351
Number of Sequences: 312970
Number of extensions: 35351
Number of successful extensions: 12248
Number of sequences better than 0.5: 13
Number of HSP's better than 0.5 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 12227
Number of HSP's gapped (non-prelim): 20
length of query: 405
length of database: 175,134,539
effective HSP length: 18
effective length of query: 387
effective length of database: 169,501,079
effective search space: 65596917573
effective search space used: 65596917573
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)