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= 2594211.2.1
(668 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CF476071.1|CF476071 RTWW2_16_D03.g1_A021 Well-watered lo... 56 2e-006
gb|CF479898.1|CF479898 RTWW3_12_H04.g1_A022 Well-watered lo... 56 2e-006
gb|CO197872.1|CO197872 GEO1_9_E12.g1_A029 Root gravitropism... 56 2e-006
gb|CX649869.1|CX649869 COLD1_42_B01.b1_A029 Root cold Pinus... 56 2e-006
gb|CX649938.1|CX649938 COLD1_42_B01.g1_A029 Root cold Pinus... 56 2e-006
gb|DR070227.1|DR070227 RTDK1_12_C03.b1_A029 Roots, dark Pin... 56 2e-006
gb|DR070312.1|DR070312 RTDK1_12_C03.g1_A029 Roots, dark Pin... 56 2e-006
gb|DR097316.1|DR097316 STRR1_33_H05.g3_A033 Stem Response R... 56 2e-006
gb|DR181356.1|DR181356 RTMNUT1_38_A01.g2_A029 Roots minus m... 56 2e-006
gb|DR685073.1|DR685073 EST1075150 Normalized pine embryo li... 46 0.002
gb|DT632636.1|DT632636 EST1147567 Normalized pine embryo li... 46 0.002
gb|DT633920.1|DT633920 EST1148851 Normalized pine embryo li... 44 0.007
gb|CF391855.1|CF391855 RTDR3_10_C05.g1_A022 Loblolly pine r... 38 0.45
gb|CF401946.1|CF401946 RTWW1_16_F09.b1_A015 Well-watered lo... 38 0.45
gb|CF402042.1|CF402042 RTWW1_16_F09.g1_A015 Well-watered lo... 38 0.45
gb|CN784348.1|CN784348 EST783039 Sequencing ESTs from loblo... 38 0.45
gb|CX650764.1|CX650764 COLD1_48_A05.b1_A029 Root cold Pinus... 38 0.45
gb|DR688987.1|DR688987 EST1079073 Normalized pine embryo li... 38 0.45
gb|DR692635.1|DR692635 EST1082723 Normalized pine embryo li... 38 0.45
gb|DR745029.1|DR745029 RTCU1_26_C03.g1_A029 Roots plus adde... 38 0.45
gb|DT625757.1|DT625757 EST1157681 Sequencing ESTs from lobl... 38 0.45
>gb|CF476071.1|CF476071 RTWW2_16_D03.g1_A021 Well-watered loblolly pine roots WW2 Pinus
taeda cDNA clone RTWW2_16_D03_A021 5', mRNA sequence
Length = 725
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 510 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 451
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 450 caattctggccccagt 435
>gb|CF479898.1|CF479898 RTWW3_12_H04.g1_A022 Well-watered loblolly pine roots WW3 Pinus
taeda cDNA clone RTWW3_12_H04_A022 5', mRNA sequence
Length = 734
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 477 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 418
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 417 caattctggccccagt 402
>gb|CO197872.1|CO197872 GEO1_9_E12.g1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_9_E12_A029 5', mRNA sequence
Length = 812
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 760 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 701
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 700 caattctggccccagt 685
>gb|CX649869.1|CX649869 COLD1_42_B01.b1_A029 Root cold Pinus taeda cDNA clone
COLD1_42_B01_A029 3', mRNA sequence
Length = 792
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 220 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 161
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 160 caattctggccccagt 145
>gb|CX649938.1|CX649938 COLD1_42_B01.g1_A029 Root cold Pinus taeda cDNA clone
COLD1_42_B01_A029 5', mRNA sequence
Length = 862
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 743 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 684
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 683 caattctggccccagt 668
>gb|DR070227.1|DR070227 RTDK1_12_C03.b1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_12_C03_A029 3', mRNA sequence
Length = 725
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 176 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 117
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 116 caattctggccccagt 101
>gb|DR070312.1|DR070312 RTDK1_12_C03.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_12_C03_A029 5', mRNA sequence
Length = 710
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 682 ccgtcgctggtggtgactttgaaggagaggctctgcccgttgaggtaactgttgctctgc 623
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 622 caattctggccccagt 607
>gb|DR097316.1|DR097316 STRR1_33_H05.g3_A033 Stem Response Resistant Pinus taeda cDNA clone
STRR1_33_H05_A033 5', mRNA sequence
Length = 794
Score = 56.0 bits (28), Expect = 2e-006
Identities = 80/96 (83%), Gaps = 1/96 (1%)
Strand = Plus / Plus
Query: 571 gccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctg 630
|||||||||||||||||| ||||||| ||| ||| |||| |||| | |||||| ||
Sbjct: 225 gccgtcgctggtggtgacttggaaggataggctctgtccgttcaggtaagagttgctttg 284
Query: 631 ccagttctggccccag-tgcgcgacagggcctgcca 665
||||||||| |||||| |||| |||| |||||||||
Sbjct: 285 ccagttctgtccccagttgcgtgacatggcctgcca 320
>gb|DR181356.1|DR181356 RTMNUT1_38_A01.g2_A029 Roots minus micronutrients Pinus taeda cDNA
clone RTMNUT1_38_A01_A029 5', mRNA sequence
Length = 765
Score = 56.0 bits (28), Expect = 2e-006
Identities = 64/76 (84%)
Strand = Plus / Minus
Query: 572 ccgtcgctggtggtgacgcggaaggagagggcctgcccgtccaggagcgtgttgctctgc 631
||||||||||||||||| |||||||||| |||||||| ||| |||||||||||
Sbjct: 719 ccgtcgctggtggtgaccttgaaggagaggctctgcccgttgaggtaactgttgctctgc 660
Query: 632 cagttctggccccagt 647
|| |||||||||||||
Sbjct: 659 caattctggccccagt 644
>gb|DR685073.1|DR685073 EST1075150 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAAZ77 3' end, mRNA sequence
Length = 848
Score = 46.1 bits (23), Expect = 0.002
Identities = 32/35 (91%)
Strand = Plus / Minus
Query: 575 tcgctggtggtgacgcggaaggagagggcctgccc 609
|||||||||||||| ||||||| |||||||||||
Sbjct: 787 tcgctggtggtgacttggaaggatagggcctgccc 753
>gb|DT632636.1|DT632636 EST1147567 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMFM16 3' end, mRNA sequence
Length = 858
Score = 46.1 bits (23), Expect = 0.002
Identities = 32/35 (91%)
Strand = Plus / Minus
Query: 575 tcgctggtggtgacgcggaaggagagggcctgccc 609
|||||||||||||| ||||||| |||||||||||
Sbjct: 796 tcgctggtggtgacttggaaggatagggcctgccc 762
>gb|DT633920.1|DT633920 EST1148851 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG023 3' end, mRNA sequence
Length = 903
Score = 44.1 bits (22), Expect = 0.007
Identities = 25/26 (96%)
Strand = Plus / Minus
Query: 575 tcgctggtggtgacgcggaaggagag 600
|||||||||||||||| |||||||||
Sbjct: 842 tcgctggtggtgacgctgaaggagag 817
>gb|CF391855.1|CF391855 RTDR3_10_C05.g1_A022 Loblolly pine roots recovering from drought
DR3 Pinus taeda cDNA clone RTDR3_10_C05_A022 5', mRNA
sequence
Length = 765
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 621 tgttgctctgccagttctggccccagt 647
||||||||||||| || ||||||||||
Sbjct: 650 tgttgctctgccaattttggccccagt 624
>gb|CF401946.1|CF401946 RTWW1_16_F09.b1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_16_F09_A015 3', mRNA sequence
Length = 542
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 583 ggtgacgcggaaggagagggcctgccc 609
|||||| ||||||||||| ||||||||
Sbjct: 150 ggtgactcggaaggagagagcctgccc 124
>gb|CF402042.1|CF402042 RTWW1_16_F09.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_16_F09_A015 5', mRNA sequence
Length = 753
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 583 ggtgacgcggaaggagagggcctgccc 609
|||||| ||||||||||| ||||||||
Sbjct: 696 ggtgactcggaaggagagagcctgccc 670
>gb|CN784348.1|CN784348 EST783039 Sequencing ESTs from loblolly pine embryos Pinus taeda
cDNA clone PIAAK45 5' end, mRNA sequence
Length = 778
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 621 tgttgctctgccagttctggccccagt 647
||||||||||||| || ||||||||||
Sbjct: 629 tgttgctctgccaattttggccccagt 603
>gb|CX650764.1|CX650764 COLD1_48_A05.b1_A029 Root cold Pinus taeda cDNA clone
COLD1_48_A05_A029 3', mRNA sequence
Length = 650
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Plus
Query: 621 tgttgctctgccagttctggccccagt 647
||||||||||||| || ||||||||||
Sbjct: 349 tgttgctctgccaattttggccccagt 375
>gb|DR688987.1|DR688987 EST1079073 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWACC87 3' end, mRNA sequence
Length = 772
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 621 tgttgctctgccagttctggccccagt 647
||||||||||||| || ||||||||||
Sbjct: 683 tgttgctctgccaattttggccccagt 657
>gb|DR692635.1|DR692635 EST1082723 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADO50 3' end, mRNA sequence
Length = 902
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 621 tgttgctctgccagttctggccccagt 647
||||||||||||| || ||||||||||
Sbjct: 686 tgttgctctgccaattttggccccagt 660
>gb|DR745029.1|DR745029 RTCU1_26_C03.g1_A029 Roots plus added copper Pinus taeda cDNA clone
RTCU1_26_C03_A029 5', mRNA sequence
Length = 599
Score = 38.2 bits (19), Expect = 0.45
Identities = 22/23 (95%)
Strand = Plus / Minus
Query: 575 tcgctggtggtgacgcggaagga 597
|||||||||||||| ||||||||
Sbjct: 496 tcgctggtggtgactcggaagga 474
>gb|DT625757.1|DT625757 EST1157681 Sequencing ESTs from loblolly pine embryos Pinus taeda
cDNA clone PIMA338 5' end, mRNA sequence
Length = 817
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 621 tgttgctctgccagttctggccccagt 647
||||||||||||| || ||||||||||
Sbjct: 629 tgttgctctgccaattttggccccagt 603
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: 56,883
Number of Sequences: 355925
Number of extensions: 56883
Number of successful extensions: 17847
Number of sequences better than 0.5: 21
Number of HSP's better than 0.5 without gapping: 21
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 17802
Number of HSP's gapped (non-prelim): 36
length of query: 668
length of database: 217,277,237
effective HSP length: 19
effective length of query: 649
effective length of database: 210,514,662
effective search space: 136624015638
effective search space used: 136624015638
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)