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= 3198766.2.1
(1273 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CF478684.1|CF478684 RTWW3_16_H09.g1_A022 Well-watered lo... 56 4e-006
gb|CF670903.1|CF670903 RTCNT1_53_H01.b1_A029 Root control P... 56 4e-006
gb|CF670977.1|CF670977 RTCNT1_53_H01.g1_A029 Root control P... 56 4e-006
gb|BM367381.1|BM367381 NXLV_048_E03_F NXLV (Nsf Xylem Late ... 48 9e-004
gb|CF400305.1|CF400305 RTWW1_4_F08.g1_A015 Well-watered lob... 48 9e-004
gb|CF400507.1|CF400507 RTWW1_5_D03.g1_A015 Well-watered lob... 48 9e-004
gb|CF402753.1|CF402753 RTWW1_22_G07.g1_A015 Well-watered lo... 48 9e-004
gb|CF671517.1|CF671517 RTCNT1_57_D05.g1_A029 Root control P... 48 9e-004
gb|DR177419.1|DR177419 RTMNUT1_5_F01.b1_A029 Roots minus mi... 48 9e-004
gb|BE761988.1|BE761988 NXCI_075_F07_F NXCI (Nsf Xylem Compr... 46 0.004
gb|BF049728.1|BF049728 NXCI_106_D04_F NXCI (Nsf Xylem Compr... 46 0.004
gb|BQ633895.1|BQ633895 NXRV062_B09_F NXRV (Nsf Xylem Root w... 46 0.004
gb|CF669425.1|CF669425 RTCNT1_43_G02.b1_A029 Root control P... 46 0.004
gb|CO366790.1|CO366790 RTK1_30_C11.b1_A029 Roots minus pota... 46 0.004
gb|CV033540.1|CV033540 RTNACL1_35_D11.b1_A029 Roots plus ad... 46 0.004
gb|DR168990.1|DR168990 RTPHOS1_29_E12.b1_A029 Roots minus p... 46 0.004
gb|CO369134.1|CO369134 RTK1_45_E02.b1_A029 Roots minus pota... 44 0.014
gb|BX250981.1|BX250981 BX250981 Pinus pinaster differenciat... 40 0.22
gb|BX254536.1|BX254536 BX254536 Pinus pinaster differenciat... 40 0.22
gb|CF401635.1|CF401635 RTWW1_14_C04.b1_A015 Well-watered lo... 40 0.22
gb|CF401713.1|CF401713 RTWW1_14_C04.g1_A015 Well-watered lo... 40 0.22
gb|CR354745.1|CR354745 CR354745 Pinus pinaster differenciat... 40 0.22
gb|CO201671.1|CO201671 RTCNT2_7_G09.b1_A029 Root control 2 ... 40 0.22
gb|CO201745.1|CO201745 RTCNT2_7_G09.g1_A029 Root control 2 ... 40 0.22
>gb|CF478684.1|CF478684 RTWW3_16_H09.g1_A022 Well-watered loblolly pine roots WW3 Pinus
taeda cDNA clone RTWW3_16_H09_A022 5', mRNA sequence
Length = 770
Score = 56.0 bits (28), Expect = 4e-006
Identities = 49/56 (87%)
Strand = Plus / Minus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||| ||||| |||||||| |||||||||||| ||||||||||||||
Sbjct: 453 ggctacttccatgtggtgaacaacgattacacgcactgggaaatgtacgccatcgg 398
>gb|CF670903.1|CF670903 RTCNT1_53_H01.b1_A029 Root control Pinus taeda cDNA clone
RTCNT1_53_H01_A029 3', mRNA sequence
Length = 763
Score = 56.0 bits (28), Expect = 4e-006
Identities = 49/56 (87%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||| ||||| |||||||| |||||||||||| ||||||||||||||
Sbjct: 100 ggctacttccatgtggtgaacaacgattacacgcactgggaaatgtacgccatcgg 155
>gb|CF670977.1|CF670977 RTCNT1_53_H01.g1_A029 Root control Pinus taeda cDNA clone
RTCNT1_53_H01_A029 5', mRNA sequence
Length = 640
Score = 56.0 bits (28), Expect = 4e-006
Identities = 49/56 (87%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||| ||||| |||||||| |||||||||||| ||||||||||||||
Sbjct: 230 ggctacttccatgtggtgaacaacgattacacgcactgggaaatgtacgccatcgg 285
>gb|BM367381.1|BM367381 NXLV_048_E03_F NXLV (Nsf Xylem Late wood Vertical) Pinus taeda cDNA
clone NXLV_048_E03 5' similar to Arabidopsis thaliana
sequence At4g24780 pectate lyase like protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 507
Score = 48.1 bits (24), Expect = 9e-004
Identities = 48/56 (85%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| |||||||| ||||| |||||| |||||||| |||||
Sbjct: 255 ggctacttccacgtggtgaacaacgattacacacactgggaaatgtacgcaatcgg 310
>gb|CF400305.1|CF400305 RTWW1_4_F08.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_4_F08_A015 5', mRNA sequence
Length = 763
Score = 48.1 bits (24), Expect = 9e-004
Identities = 48/56 (85%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| |||||||| ||||| |||||| |||||||| |||||
Sbjct: 461 ggctacttccacgtggtgaacaacgattacacacactgggaaatgtacgcaatcgg 516
>gb|CF400507.1|CF400507 RTWW1_5_D03.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_5_D03_A015 5', mRNA sequence
Length = 738
Score = 48.1 bits (24), Expect = 9e-004
Identities = 48/56 (85%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| |||||||| ||||| |||||| |||||||| |||||
Sbjct: 178 ggctacttccacgtggtgaacaacgattacacacactgggaaatgtacgcaatcgg 233
>gb|CF402753.1|CF402753 RTWW1_22_G07.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_22_G07_A015 5', mRNA sequence
Length = 807
Score = 48.1 bits (24), Expect = 9e-004
Identities = 48/56 (85%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| |||||||| ||||| |||||| |||||||| |||||
Sbjct: 407 ggctacttccacgtggtgaacaacgattacacacactgggaaatgtacgcaatcgg 462
>gb|CF671517.1|CF671517 RTCNT1_57_D05.g1_A029 Root control Pinus taeda cDNA clone
RTCNT1_57_D05_A029 5', mRNA sequence
Length = 792
Score = 48.1 bits (24), Expect = 9e-004
Identities = 48/56 (85%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| |||||||| ||||| |||||| |||||||| |||||
Sbjct: 382 ggctacttccacgtggtgaacaacgattacacacactgggaaatgtacgcaatcgg 437
>gb|DR177419.1|DR177419 RTMNUT1_5_F01.b1_A029 Roots minus micronutrients Pinus taeda cDNA
clone RTMNUT1_5_F01_A029 3', mRNA sequence
Length = 731
Score = 48.1 bits (24), Expect = 9e-004
Identities = 48/56 (85%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| |||||||| ||||| |||||| |||||||| |||||
Sbjct: 90 ggctacttccacgtggtgaacaacgattacacacactgggaaatgtacgcaatcgg 145
>gb|BE761988.1|BE761988 NXCI_075_F07_F NXCI (Nsf Xylem Compression wood Inclined) Pinus
taeda cDNA clone NXCI_075_F07 5' similar to Arabidopsis
thaliana sequence At4g24780 pectate lyase like protein
see http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 393
Score = 46.1 bits (23), Expect = 0.004
Identities = 44/51 (86%)
Strand = Plus / Plus
Query: 686 gccttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
||||||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 240 gccttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 290
>gb|BF049728.1|BF049728 NXCI_106_D04_F NXCI (Nsf Xylem Compression wood Inclined) Pinus
taeda cDNA clone NXCI_106_D04 5' similar to Arabidopsis
thaliana sequence At4g24780 pectate lyase like protein
see http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 456
Score = 46.1 bits (23), Expect = 0.004
Identities = 44/51 (86%)
Strand = Plus / Plus
Query: 686 gccttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
||||||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 240 gccttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 290
>gb|BQ633895.1|BQ633895 NXRV062_B09_F NXRV (Nsf Xylem Root wood Vertical) Pinus taeda cDNA
clone NXRV062_B09 5' similar to Arabidopsis thaliana
sequence At4g24780 pectate lyase like protein see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 657
Score = 46.1 bits (23), Expect = 0.004
Identities = 35/39 (89%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactgg 778
|||| |||||||||||| |||||||| ||||| ||||||
Sbjct: 472 ggctacttccacgtggtgaacaacgattacacacactgg 510
>gb|CF669425.1|CF669425 RTCNT1_43_G02.b1_A029 Root control Pinus taeda cDNA clone
RTCNT1_43_G02_A029 3', mRNA sequence
Length = 655
Score = 46.1 bits (23), Expect = 0.004
Identities = 35/39 (89%)
Strand = Plus / Minus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactgg 778
|||| |||||||||||| |||||||| ||||| ||||||
Sbjct: 171 ggctacttccacgtggtgaacaacgattacacacactgg 133
>gb|CO366790.1|CO366790 RTK1_30_C11.b1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_30_C11_A029 3', mRNA sequence
Length = 821
Score = 46.1 bits (23), Expect = 0.004
Identities = 44/51 (86%)
Strand = Plus / Plus
Query: 686 gccttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
||||||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 98 gccttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 148
>gb|CV033540.1|CV033540 RTNACL1_35_D11.b1_A029 Roots plus added NaCl Pinus taeda cDNA clone
RTNACL1_35_D11_A029 3', mRNA sequence
Length = 876
Score = 46.1 bits (23), Expect = 0.004
Identities = 35/39 (89%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactgg 778
|||| |||||||||||| |||||||| ||||| ||||||
Sbjct: 237 ggctacttccacgtggtgaacaacgattacacacactgg 275
>gb|DR168990.1|DR168990 RTPHOS1_29_E12.b1_A029 Roots minus phosphorous Pinus taeda cDNA
clone RTPHOS1_29_E12_A029 3', mRNA sequence
Length = 735
Score = 46.1 bits (23), Expect = 0.004
Identities = 44/51 (86%)
Strand = Plus / Minus
Query: 686 gccttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
||||||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 468 gccttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 418
>gb|CO369134.1|CO369134 RTK1_45_E02.b1_A029 Roots minus potassium Pinus taeda cDNA clone
RTK1_45_E02_A029 3', mRNA sequence
Length = 811
Score = 44.1 bits (22), Expect = 0.014
Identities = 31/34 (91%)
Strand = Plus / Plus
Query: 745 cttccacgtggtcaacaacgactacacgcactgg 778
|||||||||||| ||||| |||||||| ||||||
Sbjct: 142 cttccacgtggtgaacaatgactacactcactgg 175
>gb|BX250981.1|BX250981 BX250981 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP043G03 similar to PECTATE LYASE PRECURSOR,
mRNA sequence
Length = 678
Score = 40.1 bits (20), Expect = 0.22
Identities = 41/48 (85%)
Strand = Plus / Plus
Query: 689 ttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
|||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 123 ttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 170
>gb|BX254536.1|BX254536 BX254536 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP099G11 similar to PECTATE LYASE PRECURSOR,
mRNA sequence
Length = 705
Score = 40.1 bits (20), Expect = 0.22
Identities = 41/48 (85%)
Strand = Plus / Plus
Query: 689 ttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
|||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 83 ttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 130
>gb|CF401635.1|CF401635 RTWW1_14_C04.b1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_14_C04_A015 3', mRNA sequence
Length = 573
Score = 40.1 bits (20), Expect = 0.22
Identities = 47/56 (83%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| || ||||| ||||| |||||| |||||||| |||||
Sbjct: 31 ggctacttccacgtggtgaataacgattacacacactgggaaatgtacgcaatcgg 86
>gb|CF401713.1|CF401713 RTWW1_14_C04.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_14_C04_A015 5', mRNA sequence
Length = 733
Score = 40.1 bits (20), Expect = 0.22
Identities = 47/56 (83%)
Strand = Plus / Plus
Query: 740 ggcttcttccacgtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
|||| |||||||||||| || ||||| ||||| |||||| |||||||| |||||
Sbjct: 428 ggctacttccacgtggtgaataacgattacacacactgggaaatgtacgcaatcgg 483
>gb|CR354745.1|CR354745 CR354745 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone 125H08, mRNA sequence
Length = 582
Score = 40.1 bits (20), Expect = 0.22
Identities = 41/48 (85%)
Strand = Plus / Plus
Query: 689 ttcaaccacttcggcagaggcctcgtgcagaggatgccaaggtgccgc 736
|||||||||||||| ||||||||| ||| | ||||| |||||||||
Sbjct: 360 ttcaaccacttcggtgaaggcctcgtacagcgcatgcccaggtgccgc 407
>gb|CO201671.1|CO201671 RTCNT2_7_G09.b1_A029 Root control 2 (late) Pinus taeda cDNA clone
RTCNT2_7_G09_A029 3', mRNA sequence
Length = 818
Score = 40.1 bits (20), Expect = 0.22
Identities = 38/44 (86%)
Strand = Plus / Plus
Query: 752 gtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
||||| |||||||| ||||| |||||| ||||||||||||||
Sbjct: 50 gtggtgaacaacgattacacccactgggaaatgtacgccatcgg 93
>gb|CO201745.1|CO201745 RTCNT2_7_G09.g1_A029 Root control 2 (late) Pinus taeda cDNA clone
RTCNT2_7_G09_A029 5', mRNA sequence
Length = 837
Score = 40.1 bits (20), Expect = 0.22
Identities = 38/44 (86%)
Strand = Plus / Plus
Query: 752 gtggtcaacaacgactacacgcactggctcatgtacgccatcgg 795
||||| |||||||| ||||| |||||| ||||||||||||||
Sbjct: 665 gtggtgaacaacgattacacccactgggaaatgtacgccatcgg 708
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: 122,726
Number of Sequences: 355925
Number of extensions: 122726
Number of successful extensions: 37452
Number of sequences better than 0.5: 24
Number of HSP's better than 0.5 without gapping: 24
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 37412
Number of HSP's gapped (non-prelim): 40
length of query: 1273
length of database: 217,277,237
effective HSP length: 19
effective length of query: 1254
effective length of database: 210,514,662
effective search space: 263985386148
effective search space used: 263985386148
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)