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= 3106156.2.1
(1016 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CO166082.1|CO166082 FLD1_59_E03.b1_A029 Root flooded Pin... 86 3e-015
gb|DR745589.1|DR745589 RTCU1_30_F04.g1_A029 Roots plus adde... 86 3e-015
gb|DR052757.1|DR052757 RTCA1_6_E04.g1_A029 Roots minus calc... 74 1e-011
gb|BX253780.1|BX253780 BX253780 Pinus pinaster differenciat... 68 8e-010
gb|DR057850.1|DR057850 RTNIT1_8_E08.b1_A029 Roots minus nit... 66 3e-009
gb|CF396564.1|CF396564 RTDS2_22_F11.g1_A021 Drought-stresse... 58 7e-007
gb|BX678625.1|BX678625 BX678625 RS Pinus pinaster cDNA clon... 58 7e-007
gb|BX682993.1|BX682993 BX682993 Pinus pinaster differenciat... 58 7e-007
gb|CO197051.1|CO197051 GEO1_3_C05.g1_A029 Root gravitropism... 58 7e-007
gb|DR693051.1|DR693051 EST1083139 Normalized pine embryo li... 58 7e-007
gb|DT637598.1|DT637598 EST1152529 Normalized pine embryo li... 58 7e-007
gb|DR071265.1|DR071265 RTDK1_18_F12.g1_A029 Roots, dark Pin... 52 5e-005
gb|DR099748.1|DR099748 STRR1_58_E10.b1_A033 Stem Response R... 52 5e-005
gb|DR388190.1|DR388190 RTHG1_26_E04.g1_A029 Roots plus adde... 52 5e-005
gb|DR057937.1|DR057937 RTNIT1_8_E08.g1_A029 Roots minus nit... 50 2e-004
gb|CO196982.1|CO196982 GEO1_3_C05.b1_A029 Root gravitropism... 48 7e-004
>gb|CO166082.1|CO166082 FLD1_59_E03.b1_A029 Root flooded Pinus taeda cDNA clone
FLD1_59_E03_A029 3', mRNA sequence
Length = 811
Score = 85.7 bits (43), Expect = 3e-015
Identities = 175/219 (79%)
Strand = Plus / Minus
Query: 552 tgctttcacatgagcatcaactaaatctgtgacatcaatataatctcttatgcaggttcc 611
|||||||||||| ||||| || |||||||| |||||||| || || || || ||||| ||
Sbjct: 234 tgctttcacatgcgcatccaccaaatctgtcacatcaatgtagtccctgatacaggtacc 175
Query: 612 atcagctgtgggataatctgttcctttaacctttaatcctggaatgactcctaatgctgc 671
||||| || ||||||||||||| ||||||| ||||| ||||| | ||| ||||||
Sbjct: 174 atcaggagtactataatctgttcctctaaccttcaatccaggaataattccccttgctgc 115
Query: 672 atcaaagcaagccccagatatccgaccatgctctcgaagttctggcctaggagcctcacc 731
||| ||||| || || || || || ||||| || ||||||||||| || || || || ||
Sbjct: 114 atcgaagcatgcacccgagattcgtccatgttcccgaagttctggtcttggtgcttcccc 55
Query: 732 taatcttccctcagggtcagatccaataacattgaaata 770
||| || ||||| || || || ||||| |||||||||||
Sbjct: 54 taacctgccctctggatctgaaccaattacattgaaata 16
Score = 52.0 bits (26), Expect = 5e-005
Identities = 26/26 (100%)
Strand = Plus / Minus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||||||||||||||||
Sbjct: 392 tatacttctgcataatctcctggcct 367
>gb|DR745589.1|DR745589 RTCU1_30_F04.g1_A029 Roots plus added copper Pinus taeda cDNA clone
RTCU1_30_F04_A029 5', mRNA sequence
Length = 638
Score = 85.7 bits (43), Expect = 3e-015
Identities = 175/219 (79%)
Strand = Plus / Minus
Query: 552 tgctttcacatgagcatcaactaaatctgtgacatcaatataatctcttatgcaggttcc 611
|||||||||||| ||||| || |||||||| |||||||| || || || || ||||| ||
Sbjct: 289 tgctttcacatgcgcatccaccaaatctgtcacatcaatgtagtccctgatacaggtacc 230
Query: 612 atcagctgtgggataatctgttcctttaacctttaatcctggaatgactcctaatgctgc 671
||||| || ||||||||||||| ||||||| ||||| ||||| | ||| ||||||
Sbjct: 229 atcaggagtactataatctgttcctctaaccttcaatccaggaataattccccttgctgc 170
Query: 672 atcaaagcaagccccagatatccgaccatgctctcgaagttctggcctaggagcctcacc 731
||| ||||| || || || || || ||||| || ||||||||||| || || || || ||
Sbjct: 169 atcgaagcatgcacccgagattcgtccatgttcccgaagttctggtcttggtgcttcccc 110
Query: 732 taatcttccctcagggtcagatccaataacattgaaata 770
||| || ||||| || || || ||||| |||||||||||
Sbjct: 109 taacctgccctctggatctgaaccaattacattgaaata 71
Score = 52.0 bits (26), Expect = 5e-005
Identities = 26/26 (100%)
Strand = Plus / Minus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||||||||||||||||
Sbjct: 447 tatacttctgcataatctcctggcct 422
>gb|DR052757.1|DR052757 RTCA1_6_E04.g1_A029 Roots minus calcium Pinus taeda cDNA clone
RTCA1_6_E04_A029 5', mRNA sequence
Length = 805
Score = 73.8 bits (37), Expect = 1e-011
Identities = 85/101 (84%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagggaactaaggtgtggcttct 915
||||||||||||||||| ||||||||||||||||| ||||| | || ||| || | |||
Sbjct: 733 tcctctgccattttctttgcttttccatatggatttataggaacctgaggagtttcctct 674
Query: 916 gtaataggcatcttatctggttctccgtaggtagcacatgt 956
||||||||||| ||| | ||||| || || || ||||||||
Sbjct: 673 gtaataggcattttagcaggttccccataagttgcacatgt 633
>gb|BX253780.1|BX253780 BX253780 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone PP088D07, mRNA sequence
Length = 673
Score = 67.9 bits (34), Expect = 8e-010
Identities = 172/218 (78%)
Strand = Plus / Minus
Query: 553 gctttcacatgagcatcaactaaatctgtgacatcaatataatctcttatgcaggttcca 612
||||||||||| ||||| || |||||||| |||||||| || || || || ||||| |||
Sbjct: 242 gctttcacatgcgcatccaccaaatctgtcacatcaatgtagtccctgatacaggtacca 183
Query: 613 tcagctgtgggataatctgttcctttaacctttaatcctggaatgactcctaatgctgca 672
|||| || ||||||||||||| |||| || ||||| ||||| | ||| ||||||
Sbjct: 182 tcaggagtactataatctgttcctctaactttcaatccaggaataattcccctggctgca 123
Query: 673 tcaaagcaagccccagatatccgaccatgctctcgaagttctggcctaggagcctcacct 732
|| ||||| || || || || || ||||| || ||||||||||| || || || || |||
Sbjct: 122 tcgaagcatgcacccgagattcgtccatgttcccgaagttctggtcttggtgcttcccct 63
Query: 733 aatcttccctcagggtcagatccaataacattgaaata 770
|| || ||||| || || || ||||| |||||||||||
Sbjct: 62 aacctgccctctggatctgaaccaattacattgaaata 25
Score = 52.0 bits (26), Expect = 5e-005
Identities = 26/26 (100%)
Strand = Plus / Minus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||||||||||||||||
Sbjct: 401 tatacttctgcataatctcctggcct 376
>gb|DR057850.1|DR057850 RTNIT1_8_E08.b1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_8_E08_A029 3', mRNA sequence
Length = 748
Score = 65.9 bits (33), Expect = 3e-009
Identities = 87/105 (82%)
Strand = Plus / Minus
Query: 552 tgctttcacatgagcatcaactaaatctgtgacatcaatataatctcttatgcaggttcc 611
|||||||||||| ||||| || |||||||| |||||||| || || || || ||||| ||
Sbjct: 124 tgctttcacatgcgcatccaccaaatctgtcacatcaatgtagtccctgatacaggtacc 65
Query: 612 atcagctgtgggataatctgttcctttaacctttaatcctggaat 656
||||| || ||||||||||||| ||||||| ||||| |||||
Sbjct: 64 atcaggagtactataatctgttcctctaaccttcaatccaggaat 20
Score = 44.1 bits (22), Expect = 0.011
Identities = 25/26 (96%)
Strand = Plus / Minus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||| ||||||||||||
Sbjct: 282 tatacttctgcatgatctcctggcct 257
>gb|CF396564.1|CF396564 RTDS2_22_F11.g1_A021 Drought-stressed loblolly pine roots DS2 Pinus
taeda cDNA clone RTDS2_22_F11_A021 5', mRNA sequence
Length = 683
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagg 896
||||| ||||||||||||||||||||||| || ||||||||
Sbjct: 241 tcctcggccattttcttagcttttccataggggttgatagg 201
Score = 48.1 bits (24), Expect = 7e-004
Identities = 27/28 (96%)
Strand = Plus / Minus
Query: 440 tgatgttgaccccagttgccttcttgca 467
||||||||||||||||||||| ||||||
Sbjct: 624 tgatgttgaccccagttgcctgcttgca 597
>gb|BX678625.1|BX678625 BX678625 RS Pinus pinaster cDNA clone RS12B09, mRNA sequence
Length = 542
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagg 896
||||| ||||||||||||||||||||||| || ||||||||
Sbjct: 320 tcctcggccattttcttagcttttccataggggttgatagg 280
>gb|BX682993.1|BX682993 BX682993 Pinus pinaster differenciating xylem adult Pinus pinaster
cDNA clone 126F07 similar to UDP-glucose 4-epimerase (EC
5.1.3.2), mRNA sequence
Length = 624
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagg 896
||||| ||||||||||||||||||||||| || ||||||||
Sbjct: 84 tcctcggccattttcttagcttttccataggggttgatagg 44
Score = 48.1 bits (24), Expect = 7e-004
Identities = 27/28 (96%)
Strand = Plus / Minus
Query: 440 tgatgttgaccccagttgccttcttgca 467
||||||||||||||||||||| ||||||
Sbjct: 467 tgatgttgaccccagttgcctgcttgca 440
>gb|CO197051.1|CO197051 GEO1_3_C05.g1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_3_C05_A029 5', mRNA sequence
Length = 702
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagg 896
||||| ||||||||||||||||||||||| || ||||||||
Sbjct: 619 tcctcggccattttcttagcttttccataggggttgatagg 579
>gb|DR693051.1|DR693051 EST1083139 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PWADT74 3' end, mRNA sequence
Length = 691
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagg 896
||||| ||||||||||||||||||||||| || ||||||||
Sbjct: 594 tcctcggccattttcttagcttttccataggggttgatagg 554
>gb|DT637598.1|DT637598 EST1152529 Normalized pine embryo library, Lib_D Pinus taeda cDNA
clone PIMH548 3' end, mRNA sequence
Length = 831
Score = 58.0 bits (29), Expect = 7e-007
Identities = 38/41 (92%)
Strand = Plus / Minus
Query: 856 tcctctgccattttcttagcttttccatatggattgatagg 896
||||| ||||||||||||||||||||||| || ||||||||
Sbjct: 602 tcctcggccattttcttagcttttccataggggttgatagg 562
>gb|DR071265.1|DR071265 RTDK1_18_F12.g1_A029 Roots, dark Pinus taeda cDNA clone
RTDK1_18_F12_A029 5', mRNA sequence
Length = 527
Score = 52.0 bits (26), Expect = 5e-005
Identities = 26/26 (100%)
Strand = Plus / Plus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||||||||||||||||
Sbjct: 388 tatacttctgcataatctcctggcct 413
>gb|DR099748.1|DR099748 STRR1_58_E10.b1_A033 Stem Response Resistant Pinus taeda cDNA clone
STRR1_58_E10_A033 3', mRNA sequence
Length = 748
Score = 52.0 bits (26), Expect = 5e-005
Identities = 26/26 (100%)
Strand = Plus / Minus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||||||||||||||||
Sbjct: 177 tatacttctgcataatctcctggcct 152
>gb|DR388190.1|DR388190 RTHG1_26_E04.g1_A029 Roots plus added mercury Pinus taeda cDNA
clone RTHG1_26_E04_A029 5', mRNA sequence
Length = 540
Score = 52.0 bits (26), Expect = 5e-005
Identities = 26/26 (100%)
Strand = Plus / Plus
Query: 394 tatacttctgcataatctcctggcct 419
||||||||||||||||||||||||||
Sbjct: 365 tatacttctgcataatctcctggcct 390
>gb|DR057937.1|DR057937 RTNIT1_8_E08.g1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_8_E08_A029 5', mRNA sequence
Length = 840
Score = 50.1 bits (25), Expect = 2e-004
Identities = 73/89 (82%)
Strand = Plus / Minus
Query: 868 ttcttagcttttccatatggattgatagggaactaaggtgtggcttctgtaataggcatc 927
||||| ||||||||||||||||| ||||| | || ||| || | ||||||||||||||
Sbjct: 840 ttctttgcttttccatatggatttataggaacctgaggagtttcctctgtaataggcatt 781
Query: 928 ttatctggttctccgtaggtagcacatgt 956
||| | ||||| || || || ||||||||
Sbjct: 780 ttagcaggttccccataagttgcacatgt 752
>gb|CO196982.1|CO196982 GEO1_3_C05.b1_A029 Root gravitropism April 2003 test Pinus taeda
cDNA clone GEO1_3_C05_A029 3', mRNA sequence
Length = 677
Score = 48.1 bits (24), Expect = 7e-004
Identities = 27/28 (96%)
Strand = Plus / Minus
Query: 440 tgatgttgaccccagttgccttcttgca 467
||||||||||||||||||||| ||||||
Sbjct: 106 tgatgttgaccccagttgcctgcttgca 79
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: 125,368
Number of Sequences: 355925
Number of extensions: 125368
Number of successful extensions: 36293
Number of sequences better than 0.5: 16
Number of HSP's better than 0.5 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 36245
Number of HSP's gapped (non-prelim): 41
length of query: 1016
length of database: 217,277,237
effective HSP length: 19
effective length of query: 997
effective length of database: 210,514,662
effective search space: 209883118014
effective search space used: 209883118014
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)