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= QCS19f07.yg.2.1
(626 letters)
Database: Hordeum_nucl_with_EST.fasta
312,970 sequences; 175,134,539 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BQ469016.1|BQ469016 HM03B24r HM Hordeum vulgare subsp. v... 436 e-121
gb|BU995729.1|BU995729 HM11C24r HM Hordeum vulgare subsp. v... 420 e-116
gb|BF621467.2|BF621467 HVSMEa0011B10f Hordeum vulgare seedl... 347 3e-094
gb|BM928833.1|BM928833 LP10006 Lemma/palea-enriched cDNA li... 42 0.021
gb|BM928858.1|BM928858 LP20059 Lemma/palea-enriched cDNA li... 42 0.021
gb|BM928867.1|BM928867 LP300020 Lemma/palea-enriched cDNA l... 42 0.021
gb|CA022161.1|CA022161 HZ42F09r HZ Hordeum vulgare subsp. v... 42 0.021
gb|BM376133.1|BM376133 EBma01_SQ002_H07_R maternal, 4 DPA, ... 40 0.085
gb|BM928834.1|BM928834 LP10007 Lemma/palea-enriched cDNA li... 40 0.085
gb|BM928843.1|BM928843 LP10030 Lemma/palea-enriched cDNA li... 40 0.085
gb|BQ134670.1|BQ134670 LP30108 Lemma/palea-enriched cDNA li... 40 0.085
gb|BQ134683.1|BQ134683 LP30159 Lemma/palea-enriched cDNA li... 40 0.085
gb|BM376088.2|BM376088 EBma01_SQ002_F01_R maternal, 4 DPA, ... 40 0.085
gb|BM376094.2|BM376094 EBma01_SQ002_F09_R maternal, 4 DPA, ... 40 0.085
gb|BM371381.2|BM371381 EBma08_SQ002_I05_R maternal, 28 DPA,... 40 0.085
gb|BM371382.2|BM371382 EBma08_SQ002_I06_R maternal, 28 DPA,... 40 0.085
gb|BM371429.2|BM371429 EBma08_SQ002_L04_R maternal, 28 DPA,... 40 0.085
gb|CD240764.1|CD240764 LP30021 Lemma/palea-enriched cDNA li... 40 0.085
>gb|BQ469016.1|BQ469016 HM03B24r HM Hordeum vulgare subsp. vulgare cDNA clone HM03B24
5-PRIME, mRNA sequence
Length = 582
Score = 436 bits (220), Expect = e-121
Identities = 295/320 (92%)
Strand = Plus / Minus
Query: 39 tagcatctgaggattttgctgcatagccatccattgaactaggctcaggcctggaaataa 98
||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 338 tagcatctgaggattctgctgcatagccatccattgaactaagctcaggcctggaaataa 279
Query: 99 tgcattttggacatctttcagagcgaagtcatcagcaagccatggcatcgctcttttgaa 158
| | ||||||||||||| || || ||||||||| ||||||||||||| |||||||||||
Sbjct: 278 ttgactttggacatcttttagggcaaagtcatcaccaagccatggcatggctcttttgaa 219
Query: 159 agcactctcaacctcgttttcatcatctggcattcctgcttgcttaggaagctttggcct 218
|||||| ||||||||| ||||||||||||||||||||| ||||||||||| ||||||||
Sbjct: 218 agcactatcaacctcgctttcatcatctggcattcctggctgcttaggaagttttggcct 159
Query: 219 gaaaaatggtggtgggcatatataaaatggtgtagcaactggttcaatctcccatatcga 278
||||||||||||||| || |||||||| ||||| ||||||||||||||||||||||||||
Sbjct: 158 gaaaaatggtggtggacaaatataaaaaggtgtggcaactggttcaatctcccatatcga 99
Query: 279 aacacgggtgcgcctctcagatgcagtcgattcatcccaaccaacctgaaggtttcgcca 338
|||||| |||||||||||||||||||| ||||||||||| |||||||||||||| |||||
Sbjct: 98 aacacgagtgcgcctctcagatgcagttgattcatcccagccaacctgaaggttccgcca 39
Query: 339 atgagaattcttccatcgca 358
||||||||| ||||| ||||
Sbjct: 38 atgagaatttttccaccgca 19
>gb|BU995729.1|BU995729 HM11C24r HM Hordeum vulgare subsp. vulgare cDNA clone HM11C24
5-PRIME, mRNA sequence
Length = 640
Score = 420 bits (212), Expect = e-116
Identities = 294/320 (91%), Gaps = 1/320 (0%)
Strand = Plus / Minus
Query: 39 tagcatctgaggattttgctgcatagccatccattgaactaggctcaggcctggaaataa 98
||||||||||||||| ||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 336 tagcatctgaggattctgctgcatagccatccattgaactaagctcaggcctggaaataa 277
Query: 99 tgcattttggacatctttcagagcgaagtcatcagcaagccatggcatcgctcttttgaa 158
| | ||||||||||||| || || ||||||||| ||||||||||||| |||||||||||
Sbjct: 276 ttgactttggacatcttttagggcaaagtcatcaccaagccatggcatggctcttttgaa 217
Query: 159 agcactctcaacctcgttttcatcatctggcattcctgcttgcttaggaagctttggcct 218
|||||| ||||||||| ||||||||||||||||||||| ||||||||||| ||||||||
Sbjct: 216 agcactatcaacctcgctttcatcatctggcattcctggctgcttaggaagttttggcct 157
Query: 219 gaaaaatggtggtgggcatatataaaatggtgtagcaactggttcaatctcccatatcga 278
||||||||||||||| || |||||||| ||||| ||||||||||||||||||||||||||
Sbjct: 156 gaaaaatggtggtggacaaatataaaaaggtgtggcaactggttcaatctcccatatcga 97
Query: 279 aacacgggtgcgcctctcagatgcagtcgattcatcccaaccaacctgaaggtttcgcca 338
|||||| |||||||||||||||||||| ||||||||||| ||||||| |||||| |||||
Sbjct: 96 aacacgagtgcgcctctcagatgcagttgattcatcccagccaacct-aaggttccgcca 38
Query: 339 atgagaattcttccatcgca 358
||||||||| ||||| ||||
Sbjct: 37 atgagaatttttccaccgca 18
>gb|BF621467.2|BF621467 HVSMEa0011B10f Hordeum vulgare seedling shoot EST library
HVcDNA0001 (Cold stress) Hordeum vulgare subsp. vulgare
cDNA clone HVSMEa0011B10f, mRNA sequence
Length = 815
Score = 347 bits (175), Expect = 3e-094
Identities = 286/323 (88%)
Strand = Plus / Minus
Query: 185 ctggcattcctgcttgcttaggaagctttggcctgaaaaatggtggtgggcatatataaa 244
|||||||||||| ||||||||||| ||||||||||||||||||||||| || |||||||
Sbjct: 326 ctggcattcctggctgcttaggaagttttggcctgaaaaatggtggtggacaaatataaa 267
Query: 245 atggtgtagcaactggttcaatctcccatatcgaaacacgggtgcgcctctcagatgcag 304
| ||||| |||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 266 aaggtgtggcaactggttcaatctcccatatcgaaacacgagtgcgcctctcagatgcag 207
Query: 305 tcgattcatcccaaccaacctgaaggtttcgccaatgagaattcttccatcgcagtggat 364
| ||||||||||| |||||||||||||| |||||||||||||| ||||| |||| ||||
Sbjct: 206 ttgattcatcccagccaacctgaaggttccgccaatgagaatttttccaccgcaccggat 147
Query: 365 ctaagtcgccaatgcctgtgatcgtgcccatgtatcttcttacccctgaatcctctgtct 424
| ||||| ||||| || ||||| ||||||||||| |||| ||||| |||||||| ||||
Sbjct: 146 ccaagtcaccaatacccgtgattgtgcccatgtaccttcggacccccgaatcctcagtct 87
Query: 425 caaagagcattctgaatcgcattccaagggacacttgtgtatacagagccttattgtatt 484
| || ||||| ||||| | ||| ||||| || |||||||||||||||||||| || ||||
Sbjct: 86 cgaacagcatcctgaacctcatcccaagagaaacttgtgtatacagagccttgttatatt 27
Query: 485 ttgctaaagggatgacaaattct 507
| |||||||| ||||||||||||
Sbjct: 26 tggctaaaggaatgacaaattct 4
>gb|BM928833.1|BM928833 LP10006 Lemma/palea-enriched cDNA library from elongation stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 1-6,
mRNA sequence
Length = 544
Score = 42.1 bits (21), Expect = 0.021
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtaca 21
|||||||||||||||||||||
Sbjct: 261 gcggccgcccgggcaggtaca 241
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 254 gcggccgcccgggcaggtac 273
>gb|BM928858.1|BM928858 LP20059 Lemma/palea-enriched cDNA library from gelatinous stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 2-59
similar to Rubisco small sub-unit gene, mRNA sequence
Length = 491
Score = 42.1 bits (21), Expect = 0.021
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtaca 21
|||||||||||||||||||||
Sbjct: 260 gcggccgcccgggcaggtaca 240
>gb|BM928867.1|BM928867 LP300020 Lemma/palea-enriched cDNA library from dough stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 3-20,
mRNA sequence
Length = 216
Score = 42.1 bits (21), Expect = 0.021
Identities = 21/21 (100%)
Strand = Plus / Minus
Query: 2 cggccgcccgggcaggtacag 22
|||||||||||||||||||||
Sbjct: 212 cggccgcccgggcaggtacag 192
>gb|CA022161.1|CA022161 HZ42F09r HZ Hordeum vulgare subsp. vulgare cDNA clone HZ42F09
5-PRIME, mRNA sequence
Length = 576
Score = 42.1 bits (21), Expect = 0.021
Identities = 24/25 (96%)
Strand = Plus / Minus
Query: 301 gcagtcgattcatcccaaccaacct 325
||||| |||||||||||||||||||
Sbjct: 137 gcagttgattcatcccaaccaacct 113
>gb|BM376133.1|BM376133 EBma01_SQ002_H07_R maternal, 4 DPA, no treatment, cv Optic, EBma01
Hordeum vulgare subsp. vulgare cDNA clone
EBma01_SQ002_H07 5', mRNA sequence
Length = 422
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 360 gcggccgcccgggcaggtac 341
>gb|BM928834.1|BM928834 LP10007 Lemma/palea-enriched cDNA library from elongation stage
of kernel Hordeum vulgare subsp. vulgare cDNA clone
1-7, mRNA sequence
Length = 420
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 10 gcggccgcccgggcaggtac 29
>gb|BM928843.1|BM928843 LP10030 Lemma/palea-enriched cDNA library from elongation stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 1-30
similar to Cytosolic GA3PDH gene, mRNA sequence
Length = 478
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 283 gcggccgcccgggcaggtac 302
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 290 gcggccgcccgggcaggtac 271
>gb|BQ134670.1|BQ134670 LP30108 Lemma/palea-enriched cDNA library from dough stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 3-108,
mRNA sequence
Length = 530
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 347 gcggccgcccgggcaggtac 328
>gb|BQ134683.1|BQ134683 LP30159 Lemma/palea-enriched cDNA library from dough stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 3-159
similar to putative ABC transporter, mRNA sequence
Length = 339
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 281 gcggccgcccgggcaggtac 262
>gb|BM376088.2|BM376088 EBma01_SQ002_F01_R maternal, 4 DPA, no treatment, cv Optic, EBma01
Hordeum vulgare subsp. vulgare cDNA clone
EBma01_SQ002_F01 5', mRNA sequence
Length = 256
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 84 gcggccgcccgggcaggtac 103
>gb|BM376094.2|BM376094 EBma01_SQ002_F09_R maternal, 4 DPA, no treatment, cv Optic, EBma01
Hordeum vulgare subsp. vulgare cDNA clone
EBma01_SQ002_F09 5', mRNA sequence
Length = 387
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 353 gcggccgcccgggcaggtac 334
>gb|BM371381.2|BM371381 EBma08_SQ002_I05_R maternal, 28 DPA, no treatment, cv Optic, EBma08
Hordeum vulgare subsp. vulgare cDNA clone
EBma08_SQ002_I05 5', mRNA sequence
Length = 581
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 519 gcggccgcccgggcaggtac 500
>gb|BM371382.2|BM371382 EBma08_SQ002_I06_R maternal, 28 DPA, no treatment, cv Optic, EBma08
Hordeum vulgare subsp. vulgare cDNA clone
EBma08_SQ002_I06 5', mRNA sequence
Length = 494
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 433 gcggccgcccgggcaggtac 414
>gb|BM371429.2|BM371429 EBma08_SQ002_L04_R maternal, 28 DPA, no treatment, cv Optic, EBma08
Hordeum vulgare subsp. vulgare cDNA clone
EBma08_SQ002_L04 5', mRNA sequence
Length = 454
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 84 gcggccgcccgggcaggtac 103
>gb|CD240764.1|CD240764 LP30021 Lemma/palea-enriched cDNA library from dough stage of
kernel Hordeum vulgare subsp. vulgare cDNA clone 3-21
similar to A. thaliana AtRer1A, Accession No. AY044321,
mRNA sequence
Length = 342
Score = 40.1 bits (20), Expect = 0.085
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 1 gcggccgcccgggcaggtac 20
||||||||||||||||||||
Sbjct: 323 gcggccgcccgggcaggtac 342
Score = 38.2 bits (19), Expect = 0.33
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 1 gcggccgcccgggcaggta 19
|||||||||||||||||||
Sbjct: 330 gcggccgcccgggcaggta 312
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: 46,927
Number of Sequences: 312970
Number of extensions: 46927
Number of successful extensions: 10959
Number of sequences better than 0.5: 18
Number of HSP's better than 0.5 without gapping: 18
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 10933
Number of HSP's gapped (non-prelim): 25
length of query: 626
length of database: 175,134,539
effective HSP length: 19
effective length of query: 607
effective length of database: 169,188,109
effective search space: 102697182163
effective search space used: 102697182163
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)