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= 4580138.2.1
(1484 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|DR691292.1|DR691292 EST1081379 Normalized pine embryo li... 60 3e-007
gb|DR693509.1|DR693509 EST1083597 Normalized pine embryo li... 60 3e-007
gb|DT636481.1|DT636481 EST1151412 Normalized pine embryo li... 60 3e-007
gb|DR069601.1|DR069601 RTDK1_8_F04.b1_A029 Roots, dark Pinu... 44 0.016
gb|DR069609.1|DR069609 RTDK1_8_G04.b1_A029 Roots, dark Pinu... 44 0.016
gb|DR081028.1|DR081028 RTFEPL1_26_H01.g1_A029 Roots plus ad... 44 0.016
gb|DR693364.1|DR693364 EST1083452 Normalized pine embryo li... 44 0.016
gb|DR694159.1|DR694159 EST1084249 Normalized pine embryo li... 44 0.016
gb|DT638027.1|DT638027 EST1152958 Normalized pine embryo li... 44 0.016
gb|DT638683.1|DT638683 EST1153614 Normalized pine embryo li... 44 0.016
gb|BX254985.1|BX254985 BX254985 Pinus pinaster differenciat... 40 0.25
gb|BX679487.1|BX679487 BX679487 RS Pinus pinaster cDNA clon... 40 0.25
gb|BX680026.1|BX680026 BX680026 RS Pinus pinaster cDNA clon... 40 0.25
gb|BX680050.1|BX680050 BX680050 RS Pinus pinaster cDNA clon... 40 0.25
gb|CR393593.1|CR393593 CR393593 RN Pinus pinaster cDNA clon... 40 0.25
gb|DR023360.1|DR023360 STRS1_57_C08.b1_A034 Shoot tip pitch... 40 0.25
gb|DR069677.1|DR069677 RTDK1_8_F04.g1_A029 Roots, dark Pinu... 40 0.25
gb|DR069685.1|DR069685 RTDK1_8_G04.g1_A029 Roots, dark Pinu... 40 0.25
>gb|DR691292.1|DR691292 EST1081379 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAD656 3' end, mRNA sequence
Length = 702
Score = 60.0 bits (30), Expect = 3e-007
Identities = 48/54 (88%)
Strand = Plus / Minus
Query: 1128 agctgtcagggctccaggatatggaaatttcatgattgcccatttgttgatgat 1181
|||||||| ||||| || |||||||| |||||||||||||| |||||||||||
Sbjct: 323 agctgtcaaagctcctgggtatggaaacttcatgattgcccacttgttgatgat 270
>gb|DR693509.1|DR693509 EST1083597 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAE014 3' end, mRNA sequence
Length = 785
Score = 60.0 bits (30), Expect = 3e-007
Identities = 48/54 (88%)
Strand = Plus / Minus
Query: 1128 agctgtcagggctccaggatatggaaatttcatgattgcccatttgttgatgat 1181
|||||||| ||||| || |||||||| |||||||||||||| |||||||||||
Sbjct: 449 agctgtcaaagctcctgggtatggaaacttcatgattgcccacttgttgatgat 396
>gb|DT636481.1|DT636481 EST1151412 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMGS33 3' end, mRNA sequence
Length = 830
Score = 60.0 bits (30), Expect = 3e-007
Identities = 48/54 (88%)
Strand = Plus / Minus
Query: 1128 agctgtcagggctccaggatatggaaatttcatgattgcccatttgttgatgat 1181
|||||||| ||||| || |||||||| |||||||||||||| |||||||||||
Sbjct: 423 agctgtcaaagctcctgggtatggaaacttcatgattgcccacttgttgatgat 370
>gb|DR069601.1|DR069601 RTDK1_8_F04.b1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_8_F04_A029 3', mRNA sequence
Length = 964
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Plus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 281 gaacacaatgaatgtatccacattggcatg 310
>gb|DR069609.1|DR069609 RTDK1_8_G04.b1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_8_G04_A029 3', mRNA sequence
Length = 865
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Plus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 182 gaacacaatgaatgtatccacattggcatg 211
>gb|DR081028.1|DR081028 RTFEPL1_26_H01.g1_A029 Roots plus added iron Pinus taeda cDNA clone
RTFEPL1_26_H01_A029 5', mRNA sequence
Length = 729
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 497 gaacacaatgaatgtatccacattggcatg 468
>gb|DR693364.1|DR693364 EST1083452 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADY20 3' end, mRNA sequence
Length = 759
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 525 gaacacaatgaatgtatccacattggcatg 496
>gb|DR694159.1|DR694159 EST1084249 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAE879 3' end, mRNA sequence
Length = 765
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 722 gaacacaatgaatgtatccacattggcatg 693
>gb|DT638027.1|DT638027 EST1152958 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMHA31 3' end, mRNA sequence
Length = 663
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 533 gaacacaatgaatgtatccacattggcatg 504
>gb|DT638683.1|DT638683 EST1153614 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMHI13 3' end, mRNA sequence
Length = 834
Score = 44.1 bits (22), Expect = 0.016
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 945 gaacacaatgaaagtatccacatcggcatg 974
|||||||||||| |||||||||| ||||||
Sbjct: 730 gaacacaatgaatgtatccacattggcatg 701
>gb|BX254985.1|BX254985 BX254985 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP108G08 similar to UBIQUITIN, mRNA sequence
Length = 605
Score = 40.1 bits (20), Expect = 0.25
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 84 cctccatgacttctaatatctaaa 107
||||||||||||| ||||||||||
Sbjct: 533 cctccatgacttcgaatatctaaa 510
>gb|BX679487.1|BX679487 BX679487 RS Pinus pinaster cDNA clone RS26H01, mRNA sequence
Length = 305
Score = 40.1 bits (20), Expect = 0.25
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 84 cctccatgacttctaatatctaaa 107
||||||||||||| ||||||||||
Sbjct: 277 cctccatgacttcgaatatctaaa 254
>gb|BX680026.1|BX680026 BX680026 RS Pinus pinaster cDNA clone RS38C08, mRNA sequence
Length = 447
Score = 40.1 bits (20), Expect = 0.25
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 84 cctccatgacttctaatatctaaa 107
||||||||||||| ||||||||||
Sbjct: 277 cctccatgacttcgaatatctaaa 254
>gb|BX680050.1|BX680050 BX680050 RS Pinus pinaster cDNA clone RS38E09, mRNA sequence
Length = 408
Score = 40.1 bits (20), Expect = 0.25
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 84 cctccatgacttctaatatctaaa 107
||||||||||||| ||||||||||
Sbjct: 282 cctccatgacttcgaatatctaaa 259
>gb|CR393593.1|CR393593 CR393593 RN Pinus pinaster cDNA clone RN62B11, mRNA sequence
Length = 487
Score = 40.1 bits (20), Expect = 0.25
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 84 cctccatgacttctaatatctaaa 107
||||||||||||| ||||||||||
Sbjct: 349 cctccatgacttcgaatatctaaa 326
>gb|DR023360.1|DR023360 STRS1_57_C08.b1_A034 Shoot tip pitch canker susceptible Pinus taeda
cDNA clone STRS1_57_C08_A034 3', mRNA sequence
Length = 864
Score = 40.1 bits (20), Expect = 0.25
Identities = 47/56 (83%)
Strand = Plus / Plus
Query: 420 ggcatgcttgtcccagataagcaaattaatcacaacagttaggagcttgttaacta 475
||||||||||||||| || |||| ||| || || ||||| |||| |||||| ||||
Sbjct: 580 ggcatgcttgtcccaaatcagcacattgataaccacagtcaggaacttgttcacta 635
>gb|DR069677.1|DR069677 RTDK1_8_F04.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_8_F04_A029 5', mRNA sequence
Length = 851
Score = 40.1 bits (20), Expect = 0.25
Identities = 47/56 (83%)
Strand = Plus / Plus
Query: 420 ggcatgcttgtcccagataagcaaattaatcacaacagttaggagcttgttaacta 475
||||||||||||||| || |||| ||| || || ||||| |||| |||||| ||||
Sbjct: 614 ggcatgcttgtcccaaatcagcacattgataaccacagtcaggaacttgttcacta 669
>gb|DR069685.1|DR069685 RTDK1_8_G04.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_8_G04_A029 5', mRNA sequence
Length = 883
Score = 40.1 bits (20), Expect = 0.25
Identities = 47/56 (83%)
Strand = Plus / Plus
Query: 420 ggcatgcttgtcccagataagcaaattaatcacaacagttaggagcttgttaacta 475
||||||||||||||| || |||| ||| || || ||||| |||| |||||| ||||
Sbjct: 610 ggcatgcttgtcccaaatcagcacattgataaccacagtcaggaacttgttcacta 665
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: 176,330
Number of Sequences: 355925
Number of extensions: 176330
Number of successful extensions: 46786
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: 46740
Number of HSP's gapped (non-prelim): 46
length of query: 1484
length of database: 217,277,237
effective HSP length: 19
effective length of query: 1465
effective length of database: 210,514,662
effective search space: 308403979830
effective search space used: 308403979830
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)