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= 3023309.2.1
(1096 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CO367089.1|CO367089 RTK1_32_C08.b1_A029 Roots minus pota... 64 1e-008
gb|DR695180.1|DR695180 EST1085273 Normalized pine embryo li... 64 1e-008
gb|DR690082.1|DR690082 EST1080171 Normalized pine embryo li... 60 2e-007
gb|DT635986.1|DT635986 EST1150917 Normalized pine embryo li... 60 2e-007
gb|DT631485.1|DT631485 EST1146416 Normalized pine embryo li... 58 8e-007
gb|BX253385.1|BX253385 BX253385 Pinus pinaster differenciat... 56 3e-006
gb|BM903230.1|BM903230 NXLV_081_E03_F NXLV (Nsf Xylem Late ... 54 1e-005
gb|BX253531.1|BX253531 BX253531 Pinus pinaster differenciat... 52 5e-005
gb|DR683488.1|DR683488 EST1073564 Normalized pine embryo li... 52 5e-005
gb|DR694586.1|DR694586 EST1084678 Normalized pine embryo li... 50 2e-004
gb|AW888026.1|AW888026 NXNV_129_B03_F Nsf Xylem Normal wood... 42 0.047
>gb|CO367089.1|CO367089 RTK1_32_C08.b1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_32_C08_A029 3', mRNA sequence
Length = 728
Score = 63.9 bits (32), Expect = 1e-008
Identities = 59/68 (86%)
Strand = Plus / Plus
Query: 671 taccctggcttcaaggaggttcggatgatcgaggcgaagcctgggattgctttcgtggag 730
|||||||| |||||||| || || ||||| ||||| |||||||| ||||| || ||||||
Sbjct: 133 taccctggtttcaaggaagtacgtatgattgaggcaaagcctggcattgcctttgtggag 192
Query: 731 tatggaga 738
||||||||
Sbjct: 193 tatggaga 200
>gb|DR695180.1|DR695180 EST1085273 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAEL51 3' end, mRNA sequence
Length = 893
Score = 63.9 bits (32), Expect = 1e-008
Identities = 59/68 (86%)
Strand = Plus / Plus
Query: 671 taccctggcttcaaggaggttcggatgatcgaggcgaagcctgggattgctttcgtggag 730
|||||||| |||||||| || || ||||| ||||| |||||||| ||||| || ||||||
Sbjct: 699 taccctggtttcaaggaagtacgtatgattgaggcaaagcctggcattgcctttgtggag 758
Query: 731 tatggaga 738
||||||||
Sbjct: 759 tatggaga 766
>gb|DR690082.1|DR690082 EST1080171 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWACQ91 3' end, mRNA sequence
Length = 843
Score = 60.0 bits (30), Expect = 2e-007
Identities = 72/86 (83%)
Strand = Plus / Plus
Query: 314 atgcagggctttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatca 373
||||| || |||||||||||||| ||| | |||||||| || ||||| ||||| || |||
Sbjct: 307 atgcaaggatttcccttctatgataaaccaatgagaatacagtatgcaaagacaaagtca 366
Query: 374 gatattatagcaaaggctgatggcac 399
||| || |||||||||||||||||
Sbjct: 367 gatgccattgcaaaggctgatggcac 392
Score = 58.0 bits (29), Expect = 8e-007
Identities = 65/77 (84%)
Strand = Plus / Plus
Query: 644 atgatgctccagatgctcttctgccagtaccctggcttcaaggaggttcggatgatcgag 703
|||||||| ||||| || ||||||||||||| || |||||||| || || ||||| ||
Sbjct: 634 atgatgctacagatacttttctgccagtaccagggtttcaaggaagtccgaatgattgaa 693
Query: 704 gcgaagcctgggattgc 720
|| ||||||||||||||
Sbjct: 694 gcaaagcctgggattgc 710
>gb|DT635986.1|DT635986 EST1150917 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMGM79 3' end, mRNA sequence
Length = 837
Score = 60.0 bits (30), Expect = 2e-007
Identities = 72/86 (83%)
Strand = Plus / Plus
Query: 314 atgcagggctttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatca 373
||||| || |||||||||||||| ||| | |||||||| || ||||| ||||| || |||
Sbjct: 315 atgcaaggatttcccttctatgataaaccaatgagaatacagtatgcaaagacaaagtca 374
Query: 374 gatattatagcaaaggctgatggcac 399
||| || |||||||||||||||||
Sbjct: 375 gatgccattgcaaaggctgatggcac 400
Score = 58.0 bits (29), Expect = 8e-007
Identities = 65/77 (84%)
Strand = Plus / Plus
Query: 644 atgatgctccagatgctcttctgccagtaccctggcttcaaggaggttcggatgatcgag 703
|||||||| ||||| || ||||||||||||| || |||||||| || || ||||| ||
Sbjct: 642 atgatgctacagatacttttctgccagtaccagggtttcaaggaagtccgaatgattgaa 701
Query: 704 gcgaagcctgggattgc 720
|| ||||||||||||||
Sbjct: 702 gcaaagcctgggattgc 718
>gb|DT631485.1|DT631485 EST1146416 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMF929 3' end, mRNA sequence
Length = 853
Score = 58.0 bits (29), Expect = 8e-007
Identities = 65/77 (84%)
Strand = Plus / Plus
Query: 644 atgatgctccagatgctcttctgccagtaccctggcttcaaggaggttcggatgatcgag 703
|||||||| ||||| || ||||||||||||| || |||||||| || || ||||| ||
Sbjct: 674 atgatgctacagatacttttctgccagtaccagggtttcaaggaagtccgaatgattgaa 733
Query: 704 gcgaagcctgggattgc 720
|| ||||||||||||||
Sbjct: 734 gcaaagcctgggattgc 750
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Plus
Query: 314 atgcagggctttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatca 373
||||| || |||||||||||||| ||| | |||||||| || |||| ||||| || |||
Sbjct: 347 atgcaaggatttcccttctatgataaaccaatgagaatacagcatgcaaagacaaagtca 406
Query: 374 gatattatagcaaaggctgatggcac 399
||| || |||||||||||||||||
Sbjct: 407 gatgccattgcaaaggctgatggcac 432
>gb|BX253385.1|BX253385 BX253385 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP082G09 similar to U1 SMALL NUCLEAR
RIBONUCLEOPROTEIN A, mRNA sequence
Length = 669
Score = 56.0 bits (28), Expect = 3e-006
Identities = 67/80 (83%)
Strand = Plus / Plus
Query: 595 accaaacaacatcttgtttgtccaaaacttgccacacgagacgacgcccatgatgctcca 654
|||||||||||| ||||| ||||| || | || || ||||| || | |||||||| ||
Sbjct: 558 accaaacaacatattgttcgtccagaatcttcctcatgagacaacttctatgatgctaca 617
Query: 655 gatgctcttctgccagtacc 674
||||||||||||||||||||
Sbjct: 618 gatgctcttctgccagtacc 637
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Plus
Query: 314 atgcagggctttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatca 373
||||| || |||||||||||||| ||| |||||||| || ||||| ||||| || |||
Sbjct: 280 atgcaaggatttcccttctatgataaacgaatgagaatacagtatgcaaagacaaagtca 339
Query: 374 gatattatagcaaaggctgatggcac 399
||| || |||||||||||||||||
Sbjct: 340 gatgccattgcaaaggctgatggcac 365
>gb|BM903230.1|BM903230 NXLV_081_E03_F NXLV (Nsf Xylem Late wood Vertical) Pinus taeda cDNA
clone NXLV_081_E03 5' similar to Arabidopsis thaliana
sequence At2g47580 small nuclear ribonucleoprotein U1A
see http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 321
Score = 54.0 bits (27), Expect = 1e-005
Identities = 64/77 (83%)
Strand = Plus / Plus
Query: 644 atgatgctccagatgctcttctgccagtaccctggcttcaaggaggttcggatgatcgag 703
|||||||| ||||| || ||||||||||||| | |||||||| || || ||||| ||
Sbjct: 175 atgatgctacagatacttttctgccagtaccanngtttcaaggaagtccgaatgattgaa 234
Query: 704 gcgaagcctgggattgc 720
|| ||||||||||||||
Sbjct: 235 gcaaagcctgggattgc 251
>gb|BX253531.1|BX253531 BX253531 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP084G12 similar to U1 SMALL NUCLEAR
RIBONUCLEOPROTEIN A, mRNA sequence
Length = 528
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Plus
Query: 314 atgcagggctttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatca 373
||||| || |||||||||||||| ||| |||||||| || ||||| ||||| || |||
Sbjct: 280 atgcaaggatttcccttctatgataaacgaatgagaatacagtatgcaaagacaaagtca 339
Query: 374 gatattatagcaaaggctgatggcac 399
||| || |||||||||||||||||
Sbjct: 340 gatgccattgcaaaggctgatggcac 365
>gb|DR683488.1|DR683488 EST1073564 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAAH80 3' end, mRNA sequence
Length = 693
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Plus
Query: 314 atgcagggctttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatca 373
||||| || |||||||||||||| ||| | |||||||| || |||| ||||| || |||
Sbjct: 347 atgcaaggatttcccttctatgataaaccaatgagaatacagcatgcaaagacaaagtca 406
Query: 374 gatattatagcaaaggctgatggcac 399
||| || |||||||||||||||||
Sbjct: 407 gatgccattgcaaaggctgatggcac 432
>gb|DR694586.1|DR694586 EST1084678 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAEE37 3' end, mRNA sequence
Length = 823
Score = 50.1 bits (25), Expect = 2e-004
Identities = 64/77 (83%)
Strand = Plus / Plus
Query: 644 atgatgctccagatgctcttctgccagtaccctggcttcaaggaggttcggatgatcgag 703
|||||||| ||||| || ||||||||||||| || |||||||| || | ||||| ||
Sbjct: 88 atgatgctacagatacttttctgccagtaccagggtttcaaggaagtctgaatgattgaa 147
Query: 704 gcgaagcctgggattgc 720
|| ||||||||||||||
Sbjct: 148 gcaaagcctgggattgc 164
>gb|AW888026.1|AW888026 NXNV_129_B03_F Nsf Xylem Normal wood Vertical Pinus taeda cDNA
clone NXNV_129_B03 5' similar to Arabidopsis thaliana
sequence At1g06960 putative protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 348
Score = 42.1 bits (21), Expect = 0.047
Identities = 45/53 (84%)
Strand = Plus / Plus
Query: 324 ttcccttctatgacaaaactatgagaattcaatatgccaagaccaaatcagat 376
||||||||||||| ||| | |||||||| || ||||| ||||| || ||||||
Sbjct: 290 ttcccttctatgataaaccaatgagaatacagtatgcaaagacaaagtcagat 342
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: 131,334
Number of Sequences: 355925
Number of extensions: 131334
Number of successful extensions: 39443
Number of sequences better than 0.5: 11
Number of HSP's better than 0.5 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 39407
Number of HSP's gapped (non-prelim): 34
length of query: 1096
length of database: 217,277,237
effective HSP length: 19
effective length of query: 1077
effective length of database: 210,514,662
effective search space: 226724290974
effective search space used: 226724290974
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)