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= 3345642.2.1
(600 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CO364079.1|CO364079 RTK1_13_C05.g1_A029 Roots minus pota... 46 0.002
gb|DR078574.1|DR078574 RTFEPL1_5_C09.g1_A029 Roots plus add... 46 0.002
gb|AW289781.1|AW289781 NXNV006B06F Nsf Xylem Normal wood Ve... 44 0.006
gb|CD028366.1|CD028366 NXNV006B06 Nsf Xylem Normal wood Ver... 44 0.006
gb|DR744023.1|DR744023 RTCU1_19_F03.g1_A029 Roots plus adde... 42 0.026
gb|CO197146.1|CO197146 GEO1_4_E01.b1_A029 Root gravitropism... 40 0.10
gb|CO172478.1|CO172478 NDL1_30_B02.b1_A029 Needles control ... 38 0.40
gb|CX649276.1|CX649276 COLD1_34_E01.b1_A029 Root cold Pinus... 38 0.40
gb|DR094362.1|DR094362 STRR1_14_C07.b1_A033 Stem Response R... 38 0.40
gb|DR744317.1|DR744317 RTCU1_21_E03.g1_A029 Roots plus adde... 38 0.40
gb|DT634518.1|DT634518 EST1149449 Normalized pine embryo li... 38 0.40
>gb|CO364079.1|CO364079 RTK1_13_C05.g1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_13_C05_A029 5', mRNA sequence
Length = 912
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Minus
Query: 352 gctgttgtgcactataatggaaacatgaaaccctggctgaagctggc 398
|||||| |||| |||||||| ||||||||||| ||| |||| |||||
Sbjct: 306 gctgttttgcattataatgggaacatgaaaccatggttgaaactggc 260
>gb|DR078574.1|DR078574 RTFEPL1_5_C09.g1_A029 Roots plus added iron Pinus taeda cDNA clone
RTFEPL1_5_C09_A029 5', mRNA sequence
Length = 822
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Minus
Query: 352 gctgttgtgcactataatggaaacatgaaaccctggctgaagctggc 398
|||||| |||| |||||||| ||||||||||| ||| |||| |||||
Sbjct: 616 gctgttttgcattataatgggaacatgaaaccatggttgaaactggc 570
>gb|AW289781.1|AW289781 NXNV006B06F Nsf Xylem Normal wood Vertical Pinus taeda cDNA clone
NXNV006B06 5', mRNA sequence
Length = 465
Score = 44.1 bits (22), Expect = 0.006
Identities = 40/46 (86%)
Strand = Plus / Plus
Query: 101 ttgatccacatacttgtggatgggcttttggaatgaacatttttga 146
|||||||| || ||||||||||||| | ||||||||| || |||||
Sbjct: 81 ttgatccaaatgcttgtggatgggcatatggaatgaatatatttga 126
>gb|CD028366.1|CD028366 NXNV006B06 Nsf Xylem Normal wood Vertical Pinus taeda cDNA clone
NXNV006B06 5' similar to Arabidopsis thaliana sequence
At3g61130 unknown protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 465
Score = 44.1 bits (22), Expect = 0.006
Identities = 40/46 (86%)
Strand = Plus / Plus
Query: 101 ttgatccacatacttgtggatgggcttttggaatgaacatttttga 146
|||||||| || ||||||||||||| | ||||||||| || |||||
Sbjct: 81 ttgatccaaatgcttgtggatgggcatatggaatgaatatatttga 126
>gb|DR744023.1|DR744023 RTCU1_19_F03.g1_A029 Roots plus added copper Pinus taeda cDNA clone
RTCU1_19_F03_A029 5', mRNA sequence
Length = 764
Score = 42.1 bits (21), Expect = 0.026
Identities = 48/57 (84%)
Strand = Plus / Minus
Query: 115 tgtggatgggcttttggaatgaacatttttgacttgatagcttggaggaaggcaaac 171
|||| |||||| | |||||||||||| ||||| ||| ||||||||| ||| |||||
Sbjct: 718 tgtgcatgggcatatggaatgaacatctttgatttgcaagcttggagaaagacaaac 662
>gb|CO197146.1|CO197146 GEO1_4_E01.b1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_4_E01_A029 3', mRNA sequence
Length = 628
Score = 40.1 bits (20), Expect = 0.10
Identities = 35/40 (87%)
Strand = Plus / Plus
Query: 359 tgcactataatggaaacatgaaaccctggctgaagctggc 398
|||| |||||||| ||||||||||| ||| |||| |||||
Sbjct: 3 tgcattataatgggaacatgaaaccatggttgaaactggc 42
>gb|CO172478.1|CO172478 NDL1_30_B02.b1_A029 Needles control Pinus taeda cDNA clone
NDL1_30_B02_A029 3', mRNA sequence
Length = 667
Score = 38.2 bits (19), Expect = 0.40
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 140 tttttgacttgatagcttg 158
|||||||||||||||||||
Sbjct: 356 tttttgacttgatagcttg 338
>gb|CX649276.1|CX649276 COLD1_34_E01.b1_A029 Root cold Pinus taeda cDNA clone
COLD1_34_E01_A029 3', mRNA sequence
Length = 793
Score = 38.2 bits (19), Expect = 0.40
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 97 aagattgatccacatactt 115
|||||||||||||||||||
Sbjct: 659 aagattgatccacatactt 641
>gb|DR094362.1|DR094362 STRR1_14_C07.b1_A033 Stem Response Resistant Pinus taeda cDNA clone
STRR1_14_C07_A033 3', mRNA sequence
Length = 858
Score = 38.2 bits (19), Expect = 0.40
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 97 aagattgatccacatactt 115
|||||||||||||||||||
Sbjct: 719 aagattgatccacatactt 701
>gb|DR744317.1|DR744317 RTCU1_21_E03.g1_A029 Roots plus added copper Pinus taeda cDNA clone
RTCU1_21_E03_A029 5', mRNA sequence
Length = 749
Score = 38.2 bits (19), Expect = 0.40
Identities = 28/31 (90%)
Strand = Plus / Plus
Query: 120 atgggcttttggaatgaacatttttgacttg 150
|||||| | ||| ||||||||||||||||||
Sbjct: 710 atgggcatatgggatgaacatttttgacttg 740
>gb|DT634518.1|DT634518 EST1149449 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG681 3' end, mRNA sequence
Length = 812
Score = 38.2 bits (19), Expect = 0.40
Identities = 19/19 (100%)
Strand = Plus / Minus
Query: 140 tttttgacttgatagcttg 158
|||||||||||||||||||
Sbjct: 777 tttttgacttgatagcttg 759
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: 71,057
Number of Sequences: 355925
Number of extensions: 71057
Number of successful extensions: 18620
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: 18602
Number of HSP's gapped (non-prelim): 18
length of query: 600
length of database: 217,277,237
effective HSP length: 19
effective length of query: 581
effective length of database: 210,514,662
effective search space: 122309018622
effective search space used: 122309018622
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)