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= 3067267.2.1
(893 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|DR688415.1|DR688415 EST1078499 Normalized pine embryo li... 163 2e-038
gb|DR692874.1|DR692874 EST1082962 Normalized pine embryo li... 155 4e-036
gb|CO173742.1|CO173742 NDL1_38_G11.g1_A029 Needles control ... 151 6e-035
gb|DR013680.1|DR013680 HEAT1_20_G06.g1_A029 Root at 37 C fo... 103 1e-020
gb|DT634813.1|DT634813 EST1149744 Normalized pine embryo li... 86 3e-015
gb|CF670942.1|CF670942 RTCNT1_53_D06.g1_A029 Root control P... 52 4e-005
gb|AW981526.1|AW981526 PC13F05 Pine TriplEx pollen cone lib... 46 0.002
gb|BF777929.1|BF777929 NXSI_079_A03_F NXSI (Nsf Xylem Side ... 46 0.002
gb|CO162154.1|CO162154 FLD1_33_B07.g1_A029 Root flooded Pin... 46 0.002
gb|CO197549.1|CO197549 GEO1_7_G02.b1_A029 Root gravitropism... 46 0.002
gb|DN609158.1|DN609158 EST962208 Subtracted pine embryo lib... 46 0.002
gb|DT627615.1|DT627615 EST1156364 Subtracted pine embryo li... 46 0.002
gb|CO162750.1|CO162750 FLD1_37_F12.b1_A029 Root flooded Pin... 44 0.010
gb|CO162833.1|CO162833 FLD1_37_F12.g1_A029 Root flooded Pin... 44 0.010
gb|CO163524.1|CO163524 FLD1_42_E02.b1_A029 Root flooded Pin... 44 0.010
gb|CO165706.1|CO165706 FLD1_56_A09.g1_A029 Root flooded Pin... 44 0.010
gb|CO175574.1|CO175574 NDL1_55_D06.g1_A029 Needles control ... 44 0.010
gb|DR052326.1|DR052326 RTCA1_3_H07.g1_A029 Roots minus calc... 42 0.038
gb|AL750699.1|AL750699 AL750699 RN Pinus pinaster cDNA clon... 40 0.15
>gb|DR688415.1|DR688415 EST1078499 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWAC607 3' end, mRNA sequence
Length = 913
Score = 163 bits (82), Expect = 2e-038
Identities = 202/242 (83%)
Strand = Plus / Plus
Query: 19 tatcaccttggaaaggcatattactgtttggtccacctggaacaggaaagacaatgctag 78
|||| ||||||||||| || | || ||||| ||||||||||| |||||||||||||| |
Sbjct: 561 tatcgccttggaaagggattcttctatttggcccacctggaactggaaagacaatgcttg 620
Query: 79 ctaaagctgtggctactgagtgcaaaacaacttttttcaatatttctgcctcgtcgattg 138
| || || ||||||||||||||||||||||| || ||||| || ||||| || || ||||
Sbjct: 621 ccaaggcagtggctactgagtgcaaaacaacattcttcaacatatctgcatcatccattg 680
Query: 139 taagcaagtggcgcggtgactcggagaaactagtgaaagtgttattcgaacttgcaaggc 198
| ||||||||||||||||| || || ||||| || ||||| | || || ||||||| |
Sbjct: 681 ttagcaagtggcgcggtgattcagaaaaacttgtaaaagtactttttgaggttgcaagac 740
Query: 199 atcatgcaccatctactattttccttgatgagattgatgctatcattagtcaacgtggtg 258
||||||||||||| || || || || ||||| ||||||||||| |||||||| |||||||
Sbjct: 741 atcatgcaccatcaacaatctttctagatgaaattgatgctattattagtcaccgtggtg 800
Query: 259 aa 260
||
Sbjct: 801 aa 802
>gb|DR692874.1|DR692874 EST1082962 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADR40 3' end, mRNA sequence
Length = 848
Score = 155 bits (78), Expect = 4e-036
Identities = 202/242 (83%), Gaps = 1/242 (0%)
Strand = Plus / Plus
Query: 19 tatcaccttggaaaggcatattactgtttggtccacctggaacaggaaagacaatgctag 78
|||| ||||||||||| || | || ||||| ||||||||||| |||||||||||||| |
Sbjct: 560 tatcgccttggaaagggattcttctatttggcccacctggaactggaaagacaatgcttg 619
Query: 79 ctaaagctgtggctactgagtgcaaaacaacttttttcaatatttctgcctcgtcgattg 138
| || || ||||||||||||||||||||||| || ||||| || ||||| || || ||||
Sbjct: 620 ccaaggcagtggctactgagtgcaaaacaacattcttcaacatatctgcatcatccattg 679
Query: 139 taagcaagtggcgcggtgactcggagaaactagtgaaagtgttattcgaacttgcaaggc 198
| ||||||||||||||||| || || ||||| || ||||| | || || ||||||| |
Sbjct: 680 ttagcaagtggcgcggtgattcaga-aaacttgtaaaagtactttttgaggttgcaagac 738
Query: 199 atcatgcaccatctactattttccttgatgagattgatgctatcattagtcaacgtggtg 258
||||||||||||| || || || || ||||| ||||||||||| |||||||| |||||||
Sbjct: 739 atcatgcaccatcaacaatctttctagatgaaattgatgctattattagtcaccgtggtg 798
Query: 259 aa 260
||
Sbjct: 799 aa 800
>gb|CO173742.1|CO173742 NDL1_38_G11.g1_A029 Needles control Pinus taeda cDNA clone
NDL1_38_G11_A029 5', mRNA sequence
Length = 548
Score = 151 bits (76), Expect = 6e-035
Identities = 175/208 (84%)
Strand = Plus / Plus
Query: 54 cctggaacaggaaagacaatgctagctaaagctgtggctactgagtgcaaaacaactttt 113
|||||||| |||||||||||||| || || || ||||||||||||||||||||||| ||
Sbjct: 50 cctggaactggaaagacaatgcttgccaaggcagtggctactgagtgcaaaacaacattc 109
Query: 114 ttcaatatttctgcctcgtcgattgtaagcaagtggcgcggtgactcggagaaactagtg 173
||||| || ||||| || || ||||| ||||||||||||||||| || || ||||| ||
Sbjct: 110 ttcaacatatctgcatcatccattgttagcaagtggcgcggtgattcagaaaaacttgta 169
Query: 174 aaagtgttattcgaacttgcaaggcatcatgcaccatctactattttccttgatgagatt 233
||||| | || || ||||||| |||||||||||||| || || || || ||||| |||
Sbjct: 170 aaagtactttttgaggttgcaagacatcatgcaccatcaacaatctttctagatgaaatt 229
Query: 234 gatgctatcattagtcaacgtggtgaag 261
|||||||| |||||||| ||||||||||
Sbjct: 230 gatgctattattagtcaccgtggtgaag 257
Score = 40.1 bits (20), Expect = 0.15
Identities = 65/80 (81%)
Strand = Plus / Plus
Query: 345 gtttttgttctagcagcaacaaatttaccatgggagttggatgcagcaatgctgcgtcgg 404
|||||||| || || || || ||||| || |||||| ||||||| || ||||| || ||
Sbjct: 345 gtttttgtcctggcggcgactaatttgccgtgggagctggatgctgccatgcttcgacgt 404
Query: 405 ctggagaagcgtattcttgt 424
|| || ||||||||||||||
Sbjct: 405 cttgaaaagcgtattcttgt 424
>gb|DR013680.1|DR013680 HEAT1_20_G06.g1_A029 Root at 37 C for 24 hr Pinus taeda cDNA clone
HEAT1_20_G06_A029 5', mRNA sequence
Length = 629
Score = 103 bits (52), Expect = 1e-020
Identities = 112/132 (84%)
Strand = Plus / Plus
Query: 19 tatcaccttggaaaggcatattactgtttggtccacctggaacaggaaagacaatgctag 78
|||| ||||||||||| || | || ||||| ||||||||||| |||||||||||||| |
Sbjct: 498 tatcgccttggaaagggattcttctatttggcccacctggaactggaaagacaatgcttg 557
Query: 79 ctaaagctgtggctactgagtgcaaaacaacttttttcaatatttctgcctcgtcgattg 138
| || || ||||||||||||||||||||||| || ||||| || ||||| || || ||||
Sbjct: 558 ccaaggcagtggctactgagtgcaaaacaacattcttcaacatatctgcatcatccattg 617
Query: 139 taagcaagtggc 150
| ||||||||||
Sbjct: 618 ttagcaagtggc 629
>gb|DT634813.1|DT634813 EST1149744 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMGA07 3' end, mRNA sequence
Length = 808
Score = 85.7 bits (43), Expect = 3e-015
Identities = 73/83 (87%)
Strand = Plus / Plus
Query: 45 tttggtccacctggaacaggaaagacaatgctagctaaagctgtggctactgagtgcaaa 104
||||| ||||||||||| |||||||||||||| || || || ||||||||||||||||||
Sbjct: 599 tttggcccacctggaactggaaagacaatgcttgccaaggcagtggctactgagtgcaaa 658
Query: 105 acaacttttttcaatatttctgc 127
||||| || ||||| || |||||
Sbjct: 659 acaacattcttcaacatatctgc 681
Score = 58.0 bits (29), Expect = 6e-007
Identities = 53/61 (86%)
Strand = Plus / Plus
Query: 190 ttgcaaggcatcatgcaccatctactattttccttgatgagattgatgctatcattagtc 249
||||||| |||||||||||||| || || || || ||||| ||||||||||| |||||||
Sbjct: 748 ttgcaagacatcatgcaccatcaacaatctttctagatgaaattgatgctattattagtc 807
Query: 250 a 250
|
Sbjct: 808 a 808
>gb|CF670942.1|CF670942 RTCNT1_53_D06.g1_A029 Root control Pinus taeda cDNA clone
RTCNT1_53_D06_A029 5', mRNA sequence
Length = 670
Score = 52.0 bits (26), Expect = 4e-005
Identities = 35/38 (92%)
Strand = Plus / Plus
Query: 202 atgcaccatctactattttccttgatgagattgatgct 239
|||||||||| | ||||||| |||||||||||||||||
Sbjct: 63 atgcaccatcgattattttcattgatgagattgatgct 100
>gb|AW981526.1|AW981526 PC13F05 Pine TriplEx pollen cone library Pinus taeda cDNA clone
PC13F05, mRNA sequence
Length = 631
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Plus
Query: 42 ctgtttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
||||||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 189 ctgtttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 235
>gb|BF777929.1|BF777929 NXSI_079_A03_F NXSI (Nsf Xylem Side wood Inclined) Pinus taeda cDNA
clone NXSI_079_A03 5' similar to Arabidopsis thaliana
sequence At4g02470 see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 389
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Plus
Query: 42 ctgtttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
||||||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 102 ctgtttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 148
>gb|CO162154.1|CO162154 FLD1_33_B07.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_33_B07_A029 5', mRNA sequence
Length = 799
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Plus
Query: 42 ctgtttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
||||||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 52 ctgtttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 98
>gb|CO197549.1|CO197549 GEO1_7_G02.b1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_7_G02_A029 3', mRNA sequence
Length = 664
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Minus
Query: 42 ctgtttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
||||||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 306 ctgtttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 260
>gb|DN609158.1|DN609158 EST962208 Subtracted pine embryo library, Lib_B Pinus taeda cDNA
clone PSAA931, mRNA sequence
Length = 470
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Plus
Query: 42 ctgtttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
||||||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 166 ctgtttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 212
>gb|DT627615.1|DT627615 EST1156364 Subtracted pine embryo library, Lib_B Pinus taeda cDNA
clone PIMCO62 5' end, mRNA sequence
Length = 470
Score = 46.1 bits (23), Expect = 0.002
Identities = 41/47 (87%)
Strand = Plus / Minus
Query: 42 ctgtttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
||||||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 305 ctgtttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 259
>gb|CO162750.1|CO162750 FLD1_37_F12.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_37_F12_A029 3', mRNA sequence
Length = 797
Score = 44.1 bits (22), Expect = 0.010
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 30 aaaggcatattactgtttggtccacctggaacaggaaagacaatgctagc 79
|||||||| |||| ||||| || ||||||||||| || |||||||||||
Sbjct: 185 aaaggcattctactttttggaccccctggaacagggaaaacaatgctagc 234
>gb|CO162833.1|CO162833 FLD1_37_F12.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_37_F12_A029 5', mRNA sequence
Length = 769
Score = 44.1 bits (22), Expect = 0.010
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 30 aaaggcatattactgtttggtccacctggaacaggaaagacaatgctagc 79
|||||||| |||| ||||| || ||||||||||| || |||||||||||
Sbjct: 327 aaaggcattctactttttggaccccctggaacagggaaaacaatgctagc 376
>gb|CO163524.1|CO163524 FLD1_42_E02.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_42_E02_A029 3', mRNA sequence
Length = 791
Score = 44.1 bits (22), Expect = 0.010
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 30 aaaggcatattactgtttggtccacctggaacaggaaagacaatgctagc 79
|||||||| |||| ||||| || ||||||||||| || |||||||||||
Sbjct: 148 aaaggcattctactttttggaccccctggaacagggaaaacaatgctagc 197
>gb|CO165706.1|CO165706 FLD1_56_A09.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_56_A09_A029 5', mRNA sequence
Length = 863
Score = 44.1 bits (22), Expect = 0.010
Identities = 43/50 (86%)
Strand = Plus / Plus
Query: 30 aaaggcatattactgtttggtccacctggaacaggaaagacaatgctagc 79
|||||||| |||| ||||| || ||||||||||| || |||||||||||
Sbjct: 419 aaaggcattctactttttggaccccctggaacagggaaaacaatgctagc 468
>gb|CO175574.1|CO175574 NDL1_55_D06.g1_A029 Needles control Pinus taeda cDNA clone
NDL1_55_D06_A029 5', mRNA sequence
Length = 779
Score = 44.1 bits (22), Expect = 0.010
Identities = 22/22 (100%)
Strand = Plus / Plus
Query: 43 tgtttggtccacctggaacagg 64
||||||||||||||||||||||
Sbjct: 579 tgtttggtccacctggaacagg 600
>gb|DR052326.1|DR052326 RTCA1_3_H07.g1_A029 Roots minus calcium Pinus taeda cDNA clone
RTCA1_3_H07_A029 5', mRNA sequence
Length = 858
Score = 42.1 bits (21), Expect = 0.038
Identities = 42/49 (85%)
Strand = Plus / Plus
Query: 31 aaggcatattactgtttggtccacctggaacaggaaagacaatgctagc 79
||||||| |||| ||||| || ||||||||||| || |||||||||||
Sbjct: 49 aaggcattctactttttggaccccctggaacagggaaaacaatgctagc 97
>gb|AL750699.1|AL750699 AL750699 RN Pinus pinaster cDNA clone RN06C12 similar to ATPASE,
mRNA sequence
Length = 674
Score = 40.1 bits (20), Expect = 0.15
Identities = 38/44 (86%)
Strand = Plus / Minus
Query: 45 tttggtccacctggaacaggaaagacaatgctagctaaagctgt 88
|||||||| || ||||| || || ||||||||||| ||||||||
Sbjct: 580 tttggtcctccaggaaccgggaaaacaatgctagccaaagctgt 537
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: 103,896
Number of Sequences: 355925
Number of extensions: 103896
Number of successful extensions: 28055
Number of sequences better than 0.5: 19
Number of HSP's better than 0.5 without gapping: 19
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 28028
Number of HSP's gapped (non-prelim): 25
length of query: 893
length of database: 217,277,237
effective HSP length: 19
effective length of query: 874
effective length of database: 210,514,662
effective search space: 183989814588
effective search space used: 183989814588
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)