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= 5352090.2.1
(915 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|DR687398.1|DR687398 EST1077480 Normalized pine embryo li... 58 7e-007
gb|DR687613.1|DR687613 EST1077695 Normalized pine embryo li... 58 7e-007
gb|DT633915.1|DT633915 EST1148846 Normalized pine embryo li... 58 7e-007
gb|DT634194.1|DT634194 EST1149125 Normalized pine embryo li... 58 7e-007
gb|DT634300.1|DT634300 EST1149231 Normalized pine embryo li... 58 7e-007
gb|AW437952.1|AW437952 ST78G04 Pine TriplEx shoot tip libra... 56 3e-006
gb|CF388364.1|CF388364 RTDR2_2_B10.g1_A021 Loblolly pine ro... 56 3e-006
gb|DR015097.1|DR015097 STRS1_1_B05.g1_A034 Shoot tip pitch ... 56 3e-006
gb|BE431370.1|BE431370 NXNV_181_D04_F Nsf Xylem Normal wood... 40 0.16
gb|BF517931.1|BF517931 NXSI_031_G06_F NXSI (Nsf Xylem Side ... 40 0.16
gb|CF475473.1|CF475473 RTWW2_12_F08.b1_A021 Well-watered lo... 40 0.16
gb|CF669390.1|CF669390 RTCNT1_43_C05.b1_A029 Root control P... 40 0.16
gb|CO158161.1|CO158161 FLD1_5_B06.b1_A029 Root flooded Pinu... 40 0.16
gb|CO158532.1|CO158532 FLD1_7_B11.g1_A029 Root flooded Pinu... 40 0.16
gb|CO362890.1|CO362890 RTK1_6_H08.b1_A029 Roots minus potas... 40 0.16
gb|CO362978.1|CO362978 RTK1_6_H08.g1_A029 Roots minus potas... 40 0.16
gb|CX648554.1|CX648554 COLD1_29_H11.b1_A029 Root cold Pinus... 40 0.16
gb|CX648631.1|CX648631 COLD1_29_H11.g1_A029 Root cold Pinus... 40 0.16
gb|DR091121.1|DR091121 RTAL1_19_B09.g1_A029 Roots plus adde... 40 0.16
>gb|DR687398.1|DR687398 EST1077480 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWABR96 3' end, mRNA sequence
Length = 694
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Plus
Query: 449 cttactctttttcacttgaagagccatcttcagaaatacag 489
|||||||||| |||| | |||||||||||||||||||||||
Sbjct: 361 cttactctttatcacctaaagagccatcttcagaaatacag 401
>gb|DR687613.1|DR687613 EST1077695 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWABU53 3' end, mRNA sequence
Length = 739
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Plus
Query: 449 cttactctttttcacttgaagagccatcttcagaaatacag 489
|||||||||| |||| | |||||||||||||||||||||||
Sbjct: 361 cttactctttatcacctaaagagccatcttcagaaatacag 401
>gb|DT633915.1|DT633915 EST1148846 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG017 3' end, mRNA sequence
Length = 930
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Plus
Query: 449 cttactctttttcacttgaagagccatcttcagaaatacag 489
|||||||||| |||| | |||||||||||||||||||||||
Sbjct: 369 cttactctttatcacctaaagagccatcttcagaaatacag 409
>gb|DT634194.1|DT634194 EST1149125 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG331 3' end, mRNA sequence
Length = 921
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Plus
Query: 449 cttactctttttcacttgaagagccatcttcagaaatacag 489
|||||||||| |||| | |||||||||||||||||||||||
Sbjct: 369 cttactctttatcacctaaagagccatcttcagaaatacag 409
>gb|DT634300.1|DT634300 EST1149231 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG449 3' end, mRNA sequence
Length = 776
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Plus
Query: 449 cttactctttttcacttgaagagccatcttcagaaatacag 489
|||||||||| |||| | |||||||||||||||||||||||
Sbjct: 369 cttactctttatcacctaaagagccatcttcagaaatacag 409
>gb|AW437952.1|AW437952 ST78G04 Pine TriplEx shoot tip library Pinus taeda cDNA clone
ST78G04, mRNA sequence
Length = 349
Score = 56.0 bits (28), Expect = 3e-006
Identities = 49/56 (87%)
Strand = Plus / Plus
Query: 434 atgggcgtcaagggtcttactctttttcacttgaagagccatcttcagaaatacag 489
||||| || ||||| |||||||| | |||||||| ||||||||||||||||||||
Sbjct: 208 atgggtgtgaagggccttactctgtaccacttgaaaagccatcttcagaaatacag 263
>gb|CF388364.1|CF388364 RTDR2_2_B10.g1_A021 Loblolly pine roots recovering from drought DR2
Pinus taeda cDNA clone RTDR2_2_B10_A021 5', mRNA
sequence
Length = 732
Score = 56.0 bits (28), Expect = 3e-006
Identities = 49/56 (87%)
Strand = Plus / Plus
Query: 434 atgggcgtcaagggtcttactctttttcacttgaagagccatcttcagaaatacag 489
||||| || ||||| |||||||| | |||||||| ||||||||||||||||||||
Sbjct: 317 atgggtgtgaagggccttactctgtaccacttgaaaagccatcttcagaaatacag 372
>gb|DR015097.1|DR015097 STRS1_1_B05.g1_A034 Shoot tip pitch canker susceptible Pinus taeda
cDNA clone STRS1_1_B05_A034 5', mRNA sequence
Length = 853
Score = 56.0 bits (28), Expect = 3e-006
Identities = 49/56 (87%)
Strand = Plus / Plus
Query: 434 atgggcgtcaagggtcttactctttttcacttgaagagccatcttcagaaatacag 489
||||| || ||||| |||||||| | |||||||| ||||||||||||||||||||
Sbjct: 182 atgggtgtgaagggccttactctgtaccacttgaaaagccatcttcagaaatacag 237
>gb|BE431370.1|BE431370 NXNV_181_D04_F Nsf Xylem Normal wood Vertical Pinus taeda cDNA
clone NXNV_181_D04 5' similar to Arabidopsis thaliana
sequence At3g24120 transfactor like protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 361
Score = 40.1 bits (20), Expect = 0.16
Identities = 47/56 (83%)
Strand = Plus / Plus
Query: 434 atgggcgtcaagggtcttactctttttcacttgaagagccatcttcagaaatacag 489
|||||||| || || ||||| |||| ||| |||| || |||||||||||||||||
Sbjct: 79 atgggcgtgaaagggcttacactttaccacctgaaaagtcatcttcagaaatacag 134
>gb|BF517931.1|BF517931 NXSI_031_G06_F NXSI (Nsf Xylem Side wood Inclined) Pinus taeda cDNA
clone NXSI_031_G06 5', mRNA sequence
Length = 503
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 366 agcagcggaaggaggaagag 385
>gb|CF475473.1|CF475473 RTWW2_12_F08.b1_A021 Well-watered loblolly pine roots WW2 Pinus
taeda cDNA clone RTWW2_12_F08_A021 3', mRNA sequence
Length = 583
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 119 agcagcggaaggaggaagag 138
>gb|CF669390.1|CF669390 RTCNT1_43_C05.b1_A029 Root control Pinus taeda cDNA clone
RTCNT1_43_C05_A029 3', mRNA sequence
Length = 642
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 176 agcagcggaaggaggaagag 195
>gb|CO158161.1|CO158161 FLD1_5_B06.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_5_B06_A029 3', mRNA sequence
Length = 607
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 163 agcagcggaaggaggaagag 182
>gb|CO158532.1|CO158532 FLD1_7_B11.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_7_B11_A029 5', mRNA sequence
Length = 809
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 565 agcagcggaaggaggaagag 584
>gb|CO362890.1|CO362890 RTK1_6_H08.b1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_6_H08_A029 3', mRNA sequence
Length = 780
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 333 agcagcggaaggaggaagag 352
>gb|CO362978.1|CO362978 RTK1_6_H08.g1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_6_H08_A029 5', mRNA sequence
Length = 874
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 494 agcagcggaaggaggaagag 513
>gb|CX648554.1|CX648554 COLD1_29_H11.b1_A029 Root cold Pinus taeda cDNA clone
COLD1_29_H11_A029 3', mRNA sequence
Length = 696
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 246 agcagcggaaggaggaagag 265
>gb|CX648631.1|CX648631 COLD1_29_H11.g1_A029 Root cold Pinus taeda cDNA clone
COLD1_29_H11_A029 5', mRNA sequence
Length = 784
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 526 agcagcggaaggaggaagag 545
>gb|DR091121.1|DR091121 RTAL1_19_B09.g1_A029 Roots plus added aluminum Pinus taeda cDNA
clone RTAL1_19_B09_A029 5', mRNA sequence
Length = 797
Score = 40.1 bits (20), Expect = 0.16
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 202 agcagcggaaggaggaagag 221
||||||||||||||||||||
Sbjct: 487 agcagcggaaggaggaagag 506
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: 111,088
Number of Sequences: 355925
Number of extensions: 111088
Number of successful extensions: 31461
Number of sequences better than 0.5: 19
Number of HSP's better than 0.5 without gapping: 19
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 31440
Number of HSP's gapped (non-prelim): 21
length of query: 915
length of database: 217,277,237
effective HSP length: 19
effective length of query: 896
effective length of database: 210,514,662
effective search space: 188621137152
effective search space used: 188621137152
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)