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= 2750463.2.1
(678 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|DR683912.1|DR683912 EST1073988 Normalized pine embryo li... 46 0.002
gb|DR687713.1|DR687713 EST1077795 Normalized pine embryo li... 46 0.002
gb|DT634395.1|DT634395 EST1149326 Normalized pine embryo li... 46 0.002
gb|DR014592.1|DR014592 HEAT1_50_A06.g1_A029 Root at 37 C fo... 44 0.007
gb|BM158151.1|BM158151 NXLV_030_B06_F NXLV (Nsf Xylem Late ... 38 0.45
gb|CF388888.1|CF388888 RTDR2_16_E10.b1_A021 Loblolly pine r... 38 0.45
gb|CF390100.1|CF390100 RTDR2_12_C04.g1_A021 Loblolly pine r... 38 0.45
gb|CF390295.1|CF390295 RTDR2_18_C01.g1_A021 Loblolly pine r... 38 0.45
gb|CF391068.1|CF391068 RTDR3_3_C05.g1_A022 Loblolly pine ro... 38 0.45
gb|CF391716.1|CF391716 RTDR3_11_E09.g1_A022 Loblolly pine r... 38 0.45
gb|CF392040.1|CF392040 RTDR3_12_E11.g1_A022 Loblolly pine r... 38 0.45
gb|CF393384.1|CF393384 RTDR3_20_C12.g1_A022 Loblolly pine r... 38 0.45
gb|CO198305.1|CO198305 GEO1_12_E11.g1_A029 Root gravitropis... 38 0.45
gb|CO200545.1|CO200545 GEO2_8_C07.b1_A032 Root gravitropism... 38 0.45
gb|CO200627.1|CO200627 GEO2_8_C07.g1_A032 Root gravitropism... 38 0.45
gb|CO367672.1|CO367672 RTK1_35_F12.g1_A029 Roots minus pota... 38 0.45
gb|CX712742.1|CX712742 RTPQ1_4_B01.g2_A032 Roots treated wi... 38 0.45
gb|DR069069.1|DR069069 RTDK1_4_E04.g1_A029 Roots, dark Pinu... 38 0.45
gb|DR071314.1|DR071314 RTDK1_19_C05.b1_A029 Roots, dark Pin... 38 0.45
gb|DR071391.1|DR071391 RTDK1_19_C05.g1_A029 Roots, dark Pin... 38 0.45
gb|DR110873.1|DR110873 RTS1_13_D08.g1_A029 Roots minus sulf... 38 0.45
gb|DR689074.1|DR689074 EST1079160 Normalized pine embryo li... 38 0.45
gb|DR689773.1|DR689773 EST1079859 Normalized pine embryo li... 38 0.45
gb|DT635138.1|DT635138 EST1150069 Normalized pine embryo li... 38 0.45
dbj|BD236785.1| Materials and method for modification of pl... 38 0.45
>gb|DR683912.1|DR683912 EST1073988 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAAM78 3' end, mRNA sequence
Length = 857
Score = 46.1 bits (23), Expect = 0.002
Identities = 44/51 (86%)
Strand = Plus / Plus
Query: 331 catgcagatcaagctggtgccaggcaactccgctggcacggtcaccacctt 381
|||||||||||||||||| | || | ||||||||||| |||||||||||
Sbjct: 353 catgcagatcaagctggttcagggtgattccgctggcactgtcaccacctt 403
>gb|DR687713.1|DR687713 EST1077795 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWABV68 3' end, mRNA sequence
Length = 835
Score = 46.1 bits (23), Expect = 0.002
Identities = 44/51 (86%)
Strand = Plus / Plus
Query: 331 catgcagatcaagctggtgccaggcaactccgctggcacggtcaccacctt 381
|||||||||||||||||| | || | ||||||||||| |||||||||||
Sbjct: 358 catgcagatcaagctggttcagggtgattccgctggcactgtcaccacctt 408
>gb|DT634395.1|DT634395 EST1149326 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMG551 3' end, mRNA sequence
Length = 766
Score = 46.1 bits (23), Expect = 0.002
Identities = 44/51 (86%)
Strand = Plus / Plus
Query: 331 catgcagatcaagctggtgccaggcaactccgctggcacggtcaccacctt 381
|||||||||||||||||| | || | ||||||||||| |||||||||||
Sbjct: 366 catgcagatcaagctggttcagggtgattccgctggcactgtcaccacctt 416
>gb|DR014592.1|DR014592 HEAT1_50_A06.g1_A029 Root at 37 C for 24 hr Pinus taeda cDNA clone
HEAT1_50_A06_A029 5', mRNA sequence
Length = 893
Score = 44.1 bits (22), Expect = 0.007
Identities = 82/102 (80%)
Strand = Plus / Plus
Query: 292 gttccagtccaagagcgagtacctgttcggcaagatcgacatgcagatcaagctggtgcc 351
|||||| ||||||| |||||||||||||| || | || |||| || |||||||| ||
Sbjct: 226 gttccaatccaagaaagagtacctgttcggaaaatttgagttgcaaataaagctggtacc 285
Query: 352 aggcaactccgctggcacggtcaccaccttctacctgtcgtc 393
|| || || |||||||| ||||| || |||||||| |||||
Sbjct: 286 tggaaattctgctggcactgtcactacattctacctttcgtc 327
>gb|BM158151.1|BM158151 NXLV_030_B06_F NXLV (Nsf Xylem Late wood Vertical) Pinus taeda cDNA
clone NXLV_030_B06 5' similar to Arabidopsis thaliana
sequence At4g03210 putative xyloglucan
endotransglycosylase see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 358
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 64 cagatcaagctggttcctggcgactctgctggcac 98
>gb|CF388888.1|CF388888 RTDR2_16_E10.b1_A021 Loblolly pine roots recovering from drought
DR2 Pinus taeda cDNA clone RTDR2_16_E10_A021 3', mRNA
sequence
Length = 594
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 235 ttccacacttactccatcctctggaac 209
>gb|CF390100.1|CF390100 RTDR2_12_C04.g1_A021 Loblolly pine roots recovering from drought
DR2 Pinus taeda cDNA clone RTDR2_12_C04_A021 5', mRNA
sequence
Length = 727
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 211 cagatcaagctggttcctggcgactctgctggcac 245
>gb|CF390295.1|CF390295 RTDR2_18_C01.g1_A021 Loblolly pine roots recovering from drought
DR2 Pinus taeda cDNA clone RTDR2_18_C01_A021 5', mRNA
sequence
Length = 497
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 228 cagatcaagctggttcctggcgactctgctggcac 262
>gb|CF391068.1|CF391068 RTDR3_3_C05.g1_A022 Loblolly pine roots recovering from drought DR3
Pinus taeda cDNA clone RTDR3_3_C05_A022 5', mRNA
sequence
Length = 391
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 230 cagatcaagctggttcctggcgactctgctggcac 264
>gb|CF391716.1|CF391716 RTDR3_11_E09.g1_A022 Loblolly pine roots recovering from drought
DR3 Pinus taeda cDNA clone RTDR3_11_E09_A022 5', mRNA
sequence
Length = 778
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Minus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 758 ttccacacttactccatcctctggaac 732
>gb|CF392040.1|CF392040 RTDR3_12_E11.g1_A022 Loblolly pine roots recovering from drought
DR3 Pinus taeda cDNA clone RTDR3_12_E11_A022 5', mRNA
sequence
Length = 788
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 22 cagatcaagctggttcctggcgactctgctggcac 56
>gb|CF393384.1|CF393384 RTDR3_20_C12.g1_A022 Loblolly pine roots recovering from drought
DR3 Pinus taeda cDNA clone RTDR3_20_C12_A022 5', mRNA
sequence
Length = 734
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 266 cagatcaagctggttcctggcgactctgctggcac 300
>gb|CO198305.1|CO198305 GEO1_12_E11.g1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_12_E11_A029 5', mRNA sequence
Length = 785
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Plus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 365 ttccacacttactccatcctctggaac 391
>gb|CO200545.1|CO200545 GEO2_8_C07.b1_A032 Root gravitropism October 2003 test Pinus taeda
cDNA clone GEO2_8_C07_A032 3', mRNA sequence
Length = 769
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Plus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 15 ttccacacttactccatcctctggaac 41
>gb|CO200627.1|CO200627 GEO2_8_C07.g1_A032 Root gravitropism October 2003 test Pinus taeda
cDNA clone GEO2_8_C07_A032 5', mRNA sequence
Length = 792
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Plus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 464 ttccacacttactccatcctctggaac 490
>gb|CO367672.1|CO367672 RTK1_35_F12.g1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_35_F12_A029 5', mRNA sequence
Length = 804
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Plus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 464 ttccacacttactccatcctctggaac 490
>gb|CX712742.1|CX712742 RTPQ1_4_B01.g2_A032 Roots treated with paraquat Pinus taeda cDNA
clone RTPQ1_4_B01_A032 5', mRNA sequence
Length = 854
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 257 cagatcaagctggttcctggcgactctgctggcac 291
>gb|DR069069.1|DR069069 RTDK1_4_E04.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_4_E04_A029 5', mRNA sequence
Length = 750
Score = 38.2 bits (19), Expect = 0.45
Identities = 25/27 (92%)
Strand = Plus / Plus
Query: 539 ttccacacctactccatcctgtggaac 565
|||||||| ||||||||||| ||||||
Sbjct: 465 ttccacacttactccatcctctggaac 491
>gb|DR071314.1|DR071314 RTDK1_19_C05.b1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_19_C05_A029 3', mRNA sequence
Length = 451
Score = 38.2 bits (19), Expect = 0.45
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 89 gagaagggaggatcggaag 107
|||||||||||||||||||
Sbjct: 125 gagaagggaggatcggaag 143
>gb|DR071391.1|DR071391 RTDK1_19_C05.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_19_C05_A029 5', mRNA sequence
Length = 440
Score = 38.2 bits (19), Expect = 0.45
Identities = 19/19 (100%)
Strand = Plus / Plus
Query: 89 gagaagggaggatcggaag 107
|||||||||||||||||||
Sbjct: 102 gagaagggaggatcggaag 120
>gb|DR110873.1|DR110873 RTS1_13_D08.g1_A029 Roots minus sulfur Pinus taeda cDNA clone
RTS1_13_D08_A029 5', mRNA sequence
Length = 367
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 230 cagatcaagctggttcctggcgactctgctggcac 264
>gb|DR689074.1|DR689074 EST1079160 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWACD87 3' end, mRNA sequence
Length = 762
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 289 cagatcaagctggttcctggcgactctgctggcac 323
>gb|DR689773.1|DR689773 EST1079859 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWACN12 3' end, mRNA sequence
Length = 751
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 281 cagatcaagctggttcctggcgactctgctggcac 315
>gb|DT635138.1|DT635138 EST1150069 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMGD57 3' end, mRNA sequence
Length = 851
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 295 cagatcaagctggttcctggcgactctgctggcac 329
>dbj|BD236785.1| Materials and method for modification of plant cell wall
polysaccharides
Length = 547
Score = 38.2 bits (19), Expect = 0.45
Identities = 31/35 (88%)
Strand = Plus / Plus
Query: 335 cagatcaagctggtgccaggcaactccgctggcac 369
|||||||||||||| || ||| |||| ||||||||
Sbjct: 177 cagatcaagctggttcctggcgactctgctggcac 211
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: 49,341
Number of Sequences: 355925
Number of extensions: 49341
Number of successful extensions: 14499
Number of sequences better than 0.5: 25
Number of HSP's better than 0.5 without gapping: 24
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 14452
Number of HSP's gapped (non-prelim): 45
length of query: 678
length of database: 217,277,237
effective HSP length: 19
effective length of query: 659
effective length of database: 210,514,662
effective search space: 138729162258
effective search space used: 138729162258
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)