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= 2647492.2.1
(1179 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CR394425.1|CR394425 CR394425 RN Pinus pinaster cDNA clon... 66 4e-009
gb|CX653326.1|CX653326 COLD1_64_H02.g1_A029 Root cold Pinus... 66 4e-009
gb|DR119315.1|DR119315 RTMG1_22_B06.g1_A029 Roots minus mag... 66 4e-009
gb|DR687878.1|DR687878 EST1077961 Normalized pine embryo li... 66 4e-009
gb|DR693406.1|DR693406 EST1083494 Normalized pine embryo li... 66 4e-009
gb|DR693988.1|DR693988 EST1084078 Normalized pine embryo li... 66 4e-009
gb|DR743864.1|DR743864 RTCU1_18_D03.g1_A029 Roots plus adde... 66 4e-009
gb|DT631683.1|DT631683 EST1146614 Normalized pine embryo li... 66 4e-009
gb|DT634457.1|DT634457 EST1149388 Normalized pine embryo li... 66 4e-009
gb|CX713880.1|CX713880 RTPQ1_14_H06.b1_A032 Roots treated w... 58 9e-007
gb|BX679133.1|BX679133 BX679133 RS Pinus pinaster cDNA clon... 48 8e-004
gb|BX784252.1|BX784252 BX784252 Pinus pinaster differenciat... 48 8e-004
gb|DR012391.1|DR012391 HEAT1_12_A10.g1_A029 Root at 37 C fo... 48 8e-004
gb|DR052665.1|DR052665 RTCA1_6_C05.b1_A029 Roots minus calc... 48 8e-004
gb|DR052739.1|DR052739 RTCA1_6_C05.g1_A029 Roots minus calc... 48 8e-004
gb|DR101181.1|DR101181 STRR1_71_C12.b1_A033 Stem Response R... 48 8e-004
gb|DR689906.1|DR689906 EST1079992 Normalized pine embryo li... 48 8e-004
gb|BX249651.1|BX249651 BX249651 Pinus pinaster differenciat... 46 0.003
gb|CX650550.1|CX650550 COLD1_46_A11.g1_A029 Root cold Pinus... 46 0.003
gb|DR092456.1|DR092456 STRR1_1_B05.g1_A033 Stem Response Re... 46 0.003
gb|DR686273.1|DR686273 EST1076351 Normalized pine embryo li... 46 0.003
gb|DR686533.1|DR686533 EST1076611 Normalized pine embryo li... 44 0.013
gb|DT632679.1|DT632679 EST1147610 Normalized pine embryo li... 44 0.013
gb|BF610251.1|BF610251 NXSI_057_A04_F NXSI (Nsf Xylem Side ... 40 0.20
gb|CF475746.1|CF475746 RTWW2_15_F08.b1_A021 Well-watered lo... 40 0.20
>gb|CR394425.1|CR394425 CR394425 RN Pinus pinaster cDNA clone RN79A02, mRNA sequence
Length = 551
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 470 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 414
>gb|CX653326.1|CX653326 COLD1_64_H02.g1_A029 Root cold Pinus taeda cDNA clone
COLD1_64_H02_A029 5', mRNA sequence
Length = 893
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 125 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 69
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 212 gattccatattcatcccagccactctt 186
>gb|DR119315.1|DR119315 RTMG1_22_B06.g1_A029 Roots minus magnesium Pinus taeda cDNA clone
RTMG1_22_B06_A029 5', mRNA sequence
Length = 666
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 623 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 567
>gb|DR687878.1|DR687878 EST1077961 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWABX64 3' end, mRNA sequence
Length = 813
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 377 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 321
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 464 gattccatattcatcccagccactctt 438
>gb|DR693406.1|DR693406 EST1083494 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADY73 3' end, mRNA sequence
Length = 843
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 101 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 45
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 188 gattccatattcatcccagccactctt 162
>gb|DR693988.1|DR693988 EST1084078 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAE671 3' end, mRNA sequence
Length = 760
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 270 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 214
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 357 gattccatattcatcccagccactctt 331
>gb|DR743864.1|DR743864 RTCU1_18_D03.g1_A029 Roots plus added copper Pinus taeda cDNA clone
RTCU1_18_D03_A029 5', mRNA sequence
Length = 816
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 170 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 114
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 257 gattccatattcatcccagccactctt 231
>gb|DT631683.1|DT631683 EST1146614 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMFB51 3' end, mRNA sequence
Length = 871
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 807 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 751
>gb|DT634457.1|DT634457 EST1149388 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG619 3' end, mRNA sequence
Length = 849
Score = 65.9 bits (33), Expect = 4e-009
Identities = 51/57 (89%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||||||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 385 ggaatctggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 329
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 472 gattccatattcatcccagccactctt 446
>gb|CX713880.1|CX713880 RTPQ1_14_H06.b1_A032 Roots treated with paraquat Pinus taeda cDNA
clone RTPQ1_14_H06_A032 3', mRNA sequence
Length = 630
Score = 58.0 bits (29), Expect = 9e-007
Identities = 50/57 (87%)
Strand = Plus / Plus
Query: 898 ggaatctggatcaattccatccgtgttgggggagtcatgtggagctaggatagtcac 954
||||| ||||||||||||||| ||||| || |||||| |||| || |||||||||||
Sbjct: 49 ggaatttggatcaattccatcggtgtttggtgagtcaagtggtgcaaggatagtcac 105
>gb|BX679133.1|BX679133 BX679133 RS Pinus pinaster cDNA clone RS20C4, mRNA sequence
Length = 603
Score = 48.1 bits (24), Expect = 8e-004
Identities = 30/32 (93%)
Strand = Plus / Minus
Query: 812 attccatactcatcccagccactcttgatggc 843
||||| ||||||||||| ||||||||||||||
Sbjct: 104 attccgtactcatcccacccactcttgatggc 73
>gb|BX784252.1|BX784252 BX784252 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone 131E02, mRNA sequence
Length = 484
Score = 48.1 bits (24), Expect = 8e-004
Identities = 27/28 (96%)
Strand = Plus / Minus
Query: 894 tgctggaatctggatcaattccatccgt 921
|||| |||||||||||||||||||||||
Sbjct: 218 tgcttgaatctggatcaattccatccgt 191
>gb|DR012391.1|DR012391 HEAT1_12_A10.g1_A029 Root at 37 C for 24 hr Pinus taeda cDNA clone
HEAT1_12_A10_A029 5', mRNA sequence
Length = 543
Score = 48.1 bits (24), Expect = 8e-004
Identities = 30/32 (93%)
Strand = Plus / Minus
Query: 812 attccatactcatcccagccactcttgatggc 843
||||| ||||||||||| ||||||||||||||
Sbjct: 211 attccgtactcatcccacccactcttgatggc 180
>gb|DR052665.1|DR052665 RTCA1_6_C05.b1_A029 Roots minus calcium Pinus taeda cDNA clone
RTCA1_6_C05_A029 3', mRNA sequence
Length = 755
Score = 48.1 bits (24), Expect = 8e-004
Identities = 30/32 (93%)
Strand = Plus / Plus
Query: 812 attccatactcatcccagccactcttgatggc 843
||||| ||||||||||| ||||||||||||||
Sbjct: 88 attccgtactcatcccacccactcttgatggc 119
>gb|DR052739.1|DR052739 RTCA1_6_C05.g1_A029 Roots minus calcium Pinus taeda cDNA clone
RTCA1_6_C05_A029 5', mRNA sequence
Length = 895
Score = 48.1 bits (24), Expect = 8e-004
Identities = 30/32 (93%)
Strand = Plus / Plus
Query: 812 attccatactcatcccagccactcttgatggc 843
||||| ||||||||||| ||||||||||||||
Sbjct: 706 attccgtactcatcccacccactcttgatggc 737
>gb|DR101181.1|DR101181 STRR1_71_C12.b1_A033 Stem Response Resistant Pinus taeda cDNA clone
STRR1_71_C12_A033 3', mRNA sequence
Length = 761
Score = 48.1 bits (24), Expect = 8e-004
Identities = 30/32 (93%)
Strand = Plus / Minus
Query: 812 attccatactcatcccagccactcttgatggc 843
||||| ||||||||||| ||||||||||||||
Sbjct: 84 attccgtactcatcccacccactcttgatggc 53
>gb|DR689906.1|DR689906 EST1079992 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWACO80 3' end, mRNA sequence
Length = 676
Score = 48.1 bits (24), Expect = 8e-004
Identities = 30/32 (93%)
Strand = Plus / Minus
Query: 812 attccatactcatcccagccactcttgatggc 843
||||| ||||||||||| ||||||||||||||
Sbjct: 431 attccgtactcatcccacccactcttgatggc 400
>gb|BX249651.1|BX249651 BX249651 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP026F10, mRNA sequence
Length = 666
Score = 46.1 bits (23), Expect = 0.003
Identities = 23/23 (100%)
Strand = Plus / Minus
Query: 899 gaatctggatcaattccatccgt 921
|||||||||||||||||||||||
Sbjct: 500 gaatctggatcaattccatccgt 478
>gb|CX650550.1|CX650550 COLD1_46_A11.g1_A029 Root cold Pinus taeda cDNA clone
COLD1_46_A11_A029 5', mRNA sequence
Length = 886
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Minus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 54 gattccatattcatcccagccactctt 28
>gb|DR092456.1|DR092456 STRR1_1_B05.g1_A033 Stem Response Resistant Pinus taeda cDNA clone
STRR1_1_B05_A033 5', mRNA sequence
Length = 924
Score = 46.1 bits (23), Expect = 0.003
Identities = 26/27 (96%)
Strand = Plus / Plus
Query: 811 gattccatactcatcccagccactctt 837
||||||||| |||||||||||||||||
Sbjct: 881 gattccatattcatcccagccactctt 907
>gb|DR686273.1|DR686273 EST1076351 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWABE26 3' end, mRNA sequence
Length = 442
Score = 46.1 bits (23), Expect = 0.003
Identities = 23/23 (100%)
Strand = Plus / Minus
Query: 815 ccatactcatcccagccactctt 837
|||||||||||||||||||||||
Sbjct: 407 ccatactcatcccagccactctt 385
Score = 44.1 bits (22), Expect = 0.013
Identities = 31/34 (91%)
Strand = Plus / Minus
Query: 1131 caatagttccattctcgcctgtgatgacaacatc 1164
||||||||||||| || ||||| |||||||||||
Sbjct: 90 caatagttccattatcccctgttatgacaacatc 57
Score = 40.1 bits (20), Expect = 0.20
Identities = 23/24 (95%)
Strand = Plus / Minus
Query: 898 ggaatctggatcaattccatccgt 921
|||||||||||| |||||||||||
Sbjct: 324 ggaatctggatcgattccatccgt 301
>gb|DR686533.1|DR686533 EST1076611 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWABH10 3' end, mRNA sequence
Length = 796
Score = 44.1 bits (22), Expect = 0.013
Identities = 31/34 (91%)
Strand = Plus / Minus
Query: 1131 caatagttccattctcgcctgtgatgacaacatc 1164
||||||||||||| || ||||| |||||||||||
Sbjct: 777 caatagttccattatcccctgttatgacaacatc 744
>gb|DT632679.1|DT632679 EST1147610 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMFM61 3' end, mRNA sequence
Length = 829
Score = 44.1 bits (22), Expect = 0.013
Identities = 31/34 (91%)
Strand = Plus / Minus
Query: 1131 caatagttccattctcgcctgtgatgacaacatc 1164
||||||||||||| || ||||| |||||||||||
Sbjct: 785 caatagttccattatcccctgttatgacaacatc 752
>gb|BF610251.1|BF610251 NXSI_057_A04_F NXSI (Nsf Xylem Side wood Inclined) Pinus taeda cDNA
clone NXSI_057_A04 5' similar to Arabidopsis thaliana
sequence At3g62110 unknown protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 334
Score = 40.1 bits (20), Expect = 0.20
Identities = 26/28 (92%)
Strand = Plus / Minus
Query: 815 ccatactcatcccagccactcttgatgg 842
|||||||||||||| ||||| |||||||
Sbjct: 149 ccatactcatcccaaccacttttgatgg 122
>gb|CF475746.1|CF475746 RTWW2_15_F08.b1_A021 Well-watered loblolly pine roots WW2 Pinus
taeda cDNA clone RTWW2_15_F08_A021 3', mRNA sequence
Length = 628
Score = 40.1 bits (20), Expect = 0.20
Identities = 26/28 (92%)
Strand = Plus / Minus
Query: 815 ccatactcatcccagccactcttgatgg 842
|||||||||||||| ||||| |||||||
Sbjct: 35 ccatactcatcccaaccacttttgatgg 8
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: 109,409
Number of Sequences: 355925
Number of extensions: 109409
Number of successful extensions: 31291
Number of sequences better than 0.5: 25
Number of HSP's better than 0.5 without gapping: 25
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 31238
Number of HSP's gapped (non-prelim): 53
length of query: 1179
length of database: 217,277,237
effective HSP length: 19
effective length of query: 1160
effective length of database: 210,514,662
effective search space: 244197007920
effective search space used: 244197007920
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)