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= QCF2e06.yg.2.1
(319 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|BX255440.1|BX255440 BX255440 Pinus pinaster differenciat... 52 1e-005
gb|BX784163.1|BX784163 BX784163 Pinus pinaster differenciat... 52 1e-005
gb|CO159567.1|CO159567 FLD1_14_H08.b1_A029 Root flooded Pin... 46 8e-004
gb|CF666893.1|CF666893 RTCNT1_26_G09.g1_A029 Root control P... 44 0.003
gb|CX713086.1|CX713086 RTPQ1_6_H09.g1_A032 Roots treated wi... 44 0.003
dbj|BD235994.1| Materials and method for modification of pl... 44 0.003
gb|AA556181.1|AA556181 36 Loblolly pine N Pinus taeda cDNA ... 42 0.013
gb|CO163958.1|CO163958 FLD1_44_H06.g1_A029 Root flooded Pin... 42 0.013
gb|DR079060.1|DR079060 RTFEPL1_8_E10.g1_A029 Roots plus add... 42 0.013
gb|DR385600.1|DR385600 RTHG1_9_E02.g1_A029 Roots plus added... 42 0.013
gb|DR384947.1|DR384947 RTHG1_5_D12.g1_A029 Roots plus added... 38 0.21
>gb|BX255440.1|BX255440 BX255440 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP005G10 similar to SUCROSE SYNTHASE, mRNA
sequence
Length = 603
Score = 52.0 bits (26), Expect = 1e-005
Identities = 41/46 (89%)
Strand = Plus / Plus
Query: 236 tcactcagtgtaccatcgctcatgccttggagaaaaccaaataccc 281
|||||||||| | ||| || |||||||||||||| |||||||||||
Sbjct: 80 tcactcagtgcaacatagcccatgccttggagaagaccaaataccc 125
>gb|BX784163.1|BX784163 BX784163 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone 130A08 similar to Sucrose synthase (EC
2.4.1.13), mRNA sequence
Length = 658
Score = 52.0 bits (26), Expect = 1e-005
Identities = 41/46 (89%)
Strand = Plus / Plus
Query: 236 tcactcagtgtaccatcgctcatgccttggagaaaaccaaataccc 281
|||||||||| | ||| || |||||||||||||| |||||||||||
Sbjct: 304 tcactcagtgcaacatagcccatgccttggagaagaccaaataccc 349
>gb|CO159567.1|CO159567 FLD1_14_H08.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_14_H08_A029 3', mRNA sequence
Length = 824
Score = 46.1 bits (23), Expect = 8e-004
Identities = 38/43 (88%)
Strand = Plus / Minus
Query: 239 ctcagtgtaccatcgctcatgccttggagaaaaccaaataccc 281
||||||| | ||| || |||||||||||||| |||||||||||
Sbjct: 453 ctcagtgcaacatagcccatgccttggagaagaccaaataccc 411
>gb|CF666893.1|CF666893 RTCNT1_26_G09.g1_A029 Root control Pinus taeda cDNA clone
RTCNT1_26_G09_A029 5', mRNA sequence
Length = 792
Score = 44.1 bits (22), Expect = 0.003
Identities = 25/26 (96%)
Strand = Plus / Plus
Query: 256 catgccttggagaaaaccaaataccc 281
|||||||||||||| |||||||||||
Sbjct: 494 catgccttggagaagaccaaataccc 519
>gb|CX713086.1|CX713086 RTPQ1_6_H09.g1_A032 Roots treated with paraquat Pinus taeda cDNA
clone RTPQ1_6_H09_A032 5', mRNA sequence
Length = 829
Score = 44.1 bits (22), Expect = 0.003
Identities = 25/26 (96%)
Strand = Plus / Plus
Query: 256 catgccttggagaaaaccaaataccc 281
|||||||||||||| |||||||||||
Sbjct: 12 catgccttggagaagaccaaataccc 37
>dbj|BD235994.1| Materials and method for modification of plant cell wall
polysaccharides
Length = 401
Score = 44.1 bits (22), Expect = 0.003
Identities = 25/26 (96%)
Strand = Plus / Plus
Query: 256 catgccttggagaaaaccaaataccc 281
|||||||||||||| |||||||||||
Sbjct: 346 catgccttggagaagaccaaataccc 371
>gb|AA556181.1|AA556181 36 Loblolly pine N Pinus taeda cDNA clone 2N5C, mRNA sequence
Length = 684
Score = 42.1 bits (21), Expect = 0.013
Identities = 36/41 (87%)
Strand = Plus / Plus
Query: 256 catgccttggagaaaaccaaataccccaactcggacatata 296
||||| |||||||| ||||||||||| | |||||||||||
Sbjct: 417 catgctttggagaagaccaaatacccagattcggacatata 457
>gb|CO163958.1|CO163958 FLD1_44_H06.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_44_H06_A029 5', mRNA sequence
Length = 820
Score = 42.1 bits (21), Expect = 0.013
Identities = 51/61 (83%)
Strand = Plus / Plus
Query: 238 actcagtgtaccatcgctcatgccttggagaaaaccaaataccccaactcggacatatac 297
|||||||| | ||| || ||||| |||||||| ||||||||||| | || |||||||||
Sbjct: 708 actcagtgcaacatagcccatgctttggagaagaccaaatacccagattcagacatatac 767
Query: 298 t 298
|
Sbjct: 768 t 768
>gb|DR079060.1|DR079060 RTFEPL1_8_E10.g1_A029 Roots plus added iron Pinus taeda cDNA clone
RTFEPL1_8_E10_A029 5', mRNA sequence
Length = 815
Score = 42.1 bits (21), Expect = 0.013
Identities = 51/61 (83%)
Strand = Plus / Plus
Query: 238 actcagtgtaccatcgctcatgccttggagaaaaccaaataccccaactcggacatatac 297
|||||||| | ||| || ||||| |||||||| ||||||||||| | || |||||||||
Sbjct: 324 actcagtgcaacatagcccatgctttggagaagaccaaatacccagattcagacatatac 383
Query: 298 t 298
|
Sbjct: 384 t 384
>gb|DR385600.1|DR385600 RTHG1_9_E02.g1_A029 Roots plus added mercury Pinus taeda cDNA clone
RTHG1_9_E02_A029 5', mRNA sequence
Length = 886
Score = 42.1 bits (21), Expect = 0.013
Identities = 51/61 (83%)
Strand = Plus / Plus
Query: 238 actcagtgtaccatcgctcatgccttggagaaaaccaaataccccaactcggacatatac 297
|||||||| | ||| || ||||| |||||||| ||||||||||| | || |||||||||
Sbjct: 628 actcagtgcaacatagcccatgctttggagaagaccaaatacccagattcagacatatac 687
Query: 298 t 298
|
Sbjct: 688 t 688
>gb|DR384947.1|DR384947 RTHG1_5_D12.g1_A029 Roots plus added mercury Pinus taeda cDNA clone
RTHG1_5_D12_A029 5', mRNA sequence
Length = 787
Score = 38.2 bits (19), Expect = 0.21
Identities = 37/43 (86%)
Strand = Plus / Plus
Query: 256 catgccttggagaaaaccaaataccccaactcggacatatact 298
||||| |||||||| ||||||||||| | || ||||||||||
Sbjct: 12 catgctttggagaagaccaaatacccagattcagacatatact 54
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: 27,184
Number of Sequences: 355925
Number of extensions: 27184
Number of successful extensions: 5099
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: 5088
Number of HSP's gapped (non-prelim): 11
length of query: 319
length of database: 217,277,237
effective HSP length: 18
effective length of query: 301
effective length of database: 210,870,587
effective search space: 63472046687
effective search space used: 63472046687
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)