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= QCF7a10.yg.2.1
(523 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CO166148.1|CO166148 FLD1_59_E03.g1_A029 Root flooded Pin... 70 1e-010
gb|DR052757.1|DR052757 RTCA1_6_E04.g1_A029 Roots minus calc... 70 1e-010
gb|DR057937.1|DR057937 RTNIT1_8_E08.g1_A029 Roots minus nit... 70 1e-010
gb|DR071198.1|DR071198 RTDK1_18_F12.b1_A029 Roots, dark Pin... 70 1e-010
gb|BX678625.1|BX678625 BX678625 RS Pinus pinaster cDNA clon... 60 9e-008
gb|BE187099.1|BE187099 NXNV_155_F10_F Nsf Xylem Normal wood... 58 4e-007
gb|BE241154.1|BE241154 NXNV_173_E06_F Nsf Xylem Normal wood... 58 4e-007
gb|BQ696623.1|BQ696623 NXPV_043_D05_F NXPV (Nsf Xylem Plani... 58 4e-007
gb|CO197051.1|CO197051 GEO1_3_C05.g1_A029 Root gravitropism... 54 6e-006
gb|BE123675.1|BE123675 NXNV_151_C09_F Nsf Xylem Normal wood... 52 2e-005
gb|DR693051.1|DR693051 EST1083139 Normalized pine embryo li... 46 0.001
gb|DT637598.1|DT637598 EST1152529 Normalized pine embryo li... 46 0.001
>gb|CO166148.1|CO166148 FLD1_59_E03.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_59_E03_A029 5', mRNA sequence
Length = 885
Score = 69.9 bits (35), Expect = 1e-010
Identities = 60/69 (86%)
Strand = Plus / Plus
Query: 445 atatttgctgaaaatgcatttgatgctgtgatgcactttgcagctgnngcttatgtggga 504
|||||||| |||||||||||||| || || |||||||| || |||| |||||||||||
Sbjct: 707 atatttgcagaaaatgcatttgacgcagtaatgcacttcgctgctgtggcttatgtgggc 766
Query: 505 gagagcaca 513
|||||||||
Sbjct: 767 gagagcaca 775
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 510 tagtaacaggtggtgctggttatattggttcacatgc 546
>gb|DR052757.1|DR052757 RTCA1_6_E04.g1_A029 Roots minus calcium Pinus taeda cDNA clone
RTCA1_6_E04_A029 5', mRNA sequence
Length = 805
Score = 69.9 bits (35), Expect = 1e-010
Identities = 60/69 (86%)
Strand = Plus / Plus
Query: 445 atatttgctgaaaatgcatttgatgctgtgatgcactttgcagctgnngcttatgtggga 504
|||||||| |||||||||||||| || || |||||||| || |||| |||||||||||
Sbjct: 465 atatttgcagaaaatgcatttgacgcagtaatgcacttcgctgctgtggcttatgtgggc 524
Query: 505 gagagcaca 513
|||||||||
Sbjct: 525 gagagcaca 533
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 268 tagtaacaggtggtgctggttatattggttcacatgc 304
>gb|DR057937.1|DR057937 RTNIT1_8_E08.g1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_8_E08_A029 5', mRNA sequence
Length = 840
Score = 69.9 bits (35), Expect = 1e-010
Identities = 60/69 (86%)
Strand = Plus / Plus
Query: 445 atatttgctgaaaatgcatttgatgctgtgatgcactttgcagctgnngcttatgtggga 504
|||||||| |||||||||||||| || || |||||||| || |||| |||||||||||
Sbjct: 584 atatttgcagaaaatgcatttgacgcagtaatgcacttcgctgctgtggcttatgtgggc 643
Query: 505 gagagcaca 513
|||||||||
Sbjct: 644 gagagcaca 652
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 388 tagtaacaggtggtgctggttatattggttcacatgc 424
>gb|DR071198.1|DR071198 RTDK1_18_F12.b1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_18_F12_A029 3', mRNA sequence
Length = 817
Score = 69.9 bits (35), Expect = 1e-010
Identities = 60/69 (86%)
Strand = Plus / Minus
Query: 445 atatttgctgaaaatgcatttgatgctgtgatgcactttgcagctgnngcttatgtggga 504
|||||||| |||||||||||||| || || |||||||| || |||| |||||||||||
Sbjct: 191 atatttgcagaaaatgcatttgacgcagtaatgcacttcgctgctgtggcttatgtgggc 132
Query: 505 gagagcaca 513
|||||||||
Sbjct: 131 gagagcaca 123
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Minus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 388 tagtaacaggtggtgctggttatattggttcacatgc 352
>gb|BX678625.1|BX678625 BX678625 RS Pinus pinaster cDNA clone RS12B09, mRNA sequence
Length = 542
Score = 60.0 bits (30), Expect = 9e-008
Identities = 49/56 (87%)
Strand = Plus / Plus
Query: 457 aatgcatttgatgctgtgatgcactttgcagctgnngcttatgtgggagagagcac 512
|||||||||||||| || ||||| ||||| |||| |||||||| |||||||||||
Sbjct: 64 aatgcatttgatgcagtcatgcattttgctgctgttgcttatgttggagagagcac 119
>gb|BE187099.1|BE187099 NXNV_155_F10_F Nsf Xylem Normal wood Vertical Pinus taeda cDNA
clone NXNV_155_F10 5' similar to Arabidopsis thaliana
sequence At1g30620 UDP-galactose 4-epimerase-like
protein see http://mips.gsf.de/proj/thal/db/index.html,
mRNA sequence
Length = 314
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 81 tagtaacaggtggtgctggttatattggttcacatgc 117
Score = 38.2 bits (19), Expect = 0.35
Identities = 22/23 (95%)
Strand = Plus / Plus
Query: 445 atatttgctgaaaatgcatttga 467
|||||||| ||||||||||||||
Sbjct: 278 atatttgcagaaaatgcatttga 300
>gb|BE241154.1|BE241154 NXNV_173_E06_F Nsf Xylem Normal wood Vertical Pinus taeda cDNA
clone NXNV_173_E06 5' similar to Arabidopsis thaliana
sequence At1g30620 UDP-galactose 4-epimerase-like
protein see http://mips.gsf.de/proj/thal/db/index.html,
mRNA sequence
Length = 511
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 353 tagtaacaggtggtgctggttatattggttcacatgc 389
>gb|BQ696623.1|BQ696623 NXPV_043_D05_F NXPV (Nsf Xylem Planings wood Vertical) Pinus taeda
cDNA clone NXPV_043_D05 5' similar to Arabidopsis
thaliana sequence At1g30620 UDP-galactose
4-epimerase-like protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 467
Score = 58.0 bits (29), Expect = 4e-007
Identities = 35/37 (94%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||||||||||||||||||||||
Sbjct: 202 tagtaacaggtggtgctggttatattggttcacatgc 238
Score = 46.1 bits (23), Expect = 0.001
Identities = 51/59 (86%)
Strand = Plus / Plus
Query: 445 atatttgctgaaaatgcatttgatgctgtgatgcactttgcagctgnngcttatgtggg 503
|||||||| |||||||||||| || || |||||||| || |||||||||||||||||
Sbjct: 399 atatttgcannaaatgcatttgacgcagtaatgcacttcgctgctgnngcttatgtggg 457
>gb|CO197051.1|CO197051 GEO1_3_C05.g1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_3_C05_A029 5', mRNA sequence
Length = 702
Score = 54.0 bits (27), Expect = 6e-006
Identities = 46/53 (86%)
Strand = Plus / Plus
Query: 457 aatgcatttgatgctgtgatgcactttgcagctgnngcttatgtgggagagag 509
|||||||||||||| || ||||| ||||| |||| |||||||| ||||||||
Sbjct: 363 aatgcatttgatgcagtcatgcattttgctgctgttgcttatgttggagagag 415
>gb|BE123675.1|BE123675 NXNV_151_C09_F Nsf Xylem Normal wood Vertical Pinus taeda cDNA
clone NXNV_151_C09 5' similar to Arabidopsis thaliana
sequence At1g30620 UDP-galactose 4-epimerase-like
protein see http://mips.gsf.de/proj/thal/db/index.html,
mRNA sequence
Length = 471
Score = 52.0 bits (26), Expect = 2e-005
Identities = 34/37 (91%)
Strand = Plus / Plus
Query: 151 tagtaacaggaggagctggttatattggttcacatgc 187
|||||||||| || |||| ||||||||||||||||||
Sbjct: 353 tagtaacaggtggtgctgnttatattggttcacatgc 389
>gb|DR693051.1|DR693051 EST1083139 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADT74 3' end, mRNA sequence
Length = 691
Score = 46.1 bits (23), Expect = 0.001
Identities = 45/53 (84%)
Strand = Plus / Plus
Query: 457 aatgcatttgatgctgtgatgcactttgcagctgnngcttatgtgggagagag 509
|||||||||||||| || |||| ||||| |||| |||||||| ||||||||
Sbjct: 338 aatgcatttgatgcagtcgtgcattttgctgctgttgcttatgttggagagag 390
>gb|DT637598.1|DT637598 EST1152529 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMH548 3' end, mRNA sequence
Length = 831
Score = 46.1 bits (23), Expect = 0.001
Identities = 45/53 (84%)
Strand = Plus / Plus
Query: 457 aatgcatttgatgctgtgatgcactttgcagctgnngcttatgtgggagagag 509
|||||||||||||| || |||| ||||| |||| |||||||| ||||||||
Sbjct: 346 aatgcatttgatgcagtcgtgcattttgctgctgttgcttatgttggagagag 398
Database: Pinus_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:45 PM
Number of letters in database: 217,277,237
Number of sequences in database: 355,925
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: 66,109
Number of Sequences: 355925
Number of extensions: 66109
Number of successful extensions: 16852
Number of sequences better than 0.5: 12
Number of HSP's better than 0.5 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 16827
Number of HSP's gapped (non-prelim): 24
length of query: 523
length of database: 217,277,237
effective HSP length: 19
effective length of query: 504
effective length of database: 210,514,662
effective search space: 106099389648
effective search space used: 106099389648
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)