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= 131612.2.1
(620 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CF397389.1|CF397389 RTDS3_3_G03.b2_A022 Drought-stressed... 44 0.007
gb|CF397463.1|CF397463 RTDS3_3_G03.g1_A022 Drought-stressed... 44 0.007
gb|DR060520.1|DR060520 RTNIT1_28_H03.b1_A029 Roots minus ni... 44 0.007
gb|AI812992.1|AI812992 2E10 Pine Lambda Zap Xylem library P... 42 0.026
gb|BF049746.1|BF049746 NXCI_106_F09_F NXCI (Nsf Xylem Compr... 42 0.026
gb|BF221028.1|BF221028 NXCI_162_C02_F NXCI (Nsf Xylem Compr... 42 0.026
gb|CF394902.1|CF394902 RTDS2_8_B01.b1_A021 Drought-stressed... 40 0.10
gb|CO167598.1|CO167598 FLD1_70_A08.b1_A029 Root flooded Pin... 40 0.10
gb|CO167675.1|CO167675 FLD1_70_A08.g1_A029 Root flooded Pin... 40 0.10
gb|DR020869.1|DR020869 STRS1_39_G06.g1_A034 Shoot tip pitch... 40 0.10
>gb|CF397389.1|CF397389 RTDS3_3_G03.b2_A022 Drought-stressed loblolly pine roots DS3 Pinus
taeda cDNA clone RTDS3_3_G03_A022 3', mRNA sequence
Length = 599
Score = 44.1 bits (22), Expect = 0.007
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 195 gagttccagaccaggatgctgttcaaccaggccttcagcagaggtctgca 244
|||||||||||| | |||| ||||| ||||||||||| ||||| |||||
Sbjct: 36 gagttccagacccgtttgctcttcaatcaggccttcagtagagggctgca 85
>gb|CF397463.1|CF397463 RTDS3_3_G03.g1_A022 Drought-stressed loblolly pine roots DS3 Pinus
taeda cDNA clone RTDS3_3_G03_A022 5', mRNA sequence
Length = 773
Score = 44.1 bits (22), Expect = 0.007
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 195 gagttccagaccaggatgctgttcaaccaggccttcagcagaggtctgca 244
|||||||||||| | |||| ||||| ||||||||||| ||||| |||||
Sbjct: 539 gagttccagacccgtttgctcttcaatcaggccttcagtagagggctgca 588
>gb|DR060520.1|DR060520 RTNIT1_28_H03.b1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_28_H03_A029 3', mRNA sequence
Length = 692
Score = 44.1 bits (22), Expect = 0.007
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 195 gagttccagaccaggatgctgttcaaccaggccttcagcagaggtctgca 244
|||||||||||| | |||| ||||| ||||||||||| ||||| |||||
Sbjct: 212 gagttccagacccgtttgctcttcaatcaggccttcagtagagggctgca 261
>gb|AI812992.1|AI812992 2E10 Pine Lambda Zap Xylem library Pinus taeda cDNA, mRNA sequence
Length = 675
Score = 42.1 bits (21), Expect = 0.026
Identities = 24/25 (96%)
Strand = Plus / Plus
Query: 18 cttgccttcatgcccactggatggg 42
||||| |||||||||||||||||||
Sbjct: 424 cttgcattcatgcccactggatggg 448
>gb|BF049746.1|BF049746 NXCI_106_F09_F NXCI (Nsf Xylem Compression wood Inclined) Pinus
taeda cDNA clone NXCI_106_F09 5' similar to Arabidopsis
thaliana sequence At2g31960 glucan synthase like
protein see http://mips.gsf.de/proj/thal/db/index.html,
mRNA sequence
Length = 213
Score = 42.1 bits (21), Expect = 0.026
Identities = 24/25 (96%)
Strand = Plus / Plus
Query: 18 cttgccttcatgcccactggatggg 42
||||| |||||||||||||||||||
Sbjct: 1 cttgcattcatgcccactggatggg 25
>gb|BF221028.1|BF221028 NXCI_162_C02_F NXCI (Nsf Xylem Compression wood Inclined) Pinus
taeda cDNA clone NXCI_162_C02 5' similar to Arabidopsis
thaliana sequence At2g31960 glucan synthase like
protein see http://mips.gsf.de/proj/thal/db/index.html,
mRNA sequence
Length = 381
Score = 42.1 bits (21), Expect = 0.026
Identities = 24/25 (96%)
Strand = Plus / Plus
Query: 18 cttgccttcatgcccactggatggg 42
||||| |||||||||||||||||||
Sbjct: 1 cttgcattcatgcccactggatggg 25
>gb|CF394902.1|CF394902 RTDS2_8_B01.b1_A021 Drought-stressed loblolly pine roots DS2
Pinus taeda cDNA clone RTDS2_8_B01_A021 3', mRNA
sequence
Length = 559
Score = 40.1 bits (20), Expect = 0.10
Identities = 29/32 (90%)
Strand = Plus / Plus
Query: 13 gcatccttgccttcatgcccactggatggggt 44
|||||||||| ||||| || ||||||||||||
Sbjct: 19 gcatccttgcattcataccaactggatggggt 50
>gb|CO167598.1|CO167598 FLD1_70_A08.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_70_A08_A029 3', mRNA sequence
Length = 820
Score = 40.1 bits (20), Expect = 0.10
Identities = 26/28 (92%)
Strand = Plus / Plus
Query: 211 tgctgttcaaccaggccttcagcagagg 238
|||| ||||||||||||||||| |||||
Sbjct: 268 tgctcttcaaccaggccttcagtagagg 295
>gb|CO167675.1|CO167675 FLD1_70_A08.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_70_A08_A029 5', mRNA sequence
Length = 501
Score = 40.1 bits (20), Expect = 0.10
Identities = 26/28 (92%)
Strand = Plus / Plus
Query: 211 tgctgttcaaccaggccttcagcagagg 238
|||| ||||||||||||||||| |||||
Sbjct: 276 tgctcttcaaccaggccttcagtagagg 303
>gb|DR020869.1|DR020869 STRS1_39_G06.g1_A034 Shoot tip pitch canker susceptible Pinus taeda
cDNA clone STRS1_39_G06_A034 5', mRNA sequence
Length = 683
Score = 40.1 bits (20), Expect = 0.10
Identities = 38/44 (86%)
Strand = Plus / Minus
Query: 195 gagttccagaccaggatgctgttcaaccaggccttcagcagagg 238
|||||||||||| | |||| ||||| ||||||||||| |||||
Sbjct: 370 gagttccagacccgtttgctcttcaatcaggccttcagtagagg 327
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: 53,474
Number of Sequences: 355925
Number of extensions: 53474
Number of successful extensions: 12872
Number of sequences better than 0.5: 10
Number of HSP's better than 0.5 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 12861
Number of HSP's gapped (non-prelim): 11
length of query: 620
length of database: 217,277,237
effective HSP length: 19
effective length of query: 601
effective length of database: 210,514,662
effective search space: 126519311862
effective search space used: 126519311862
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)