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= 3802552.2.1
(252 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CO158433.1|CO158433 FLD1_6_H04.g1_A029 Root flooded Pinu... 50 4e-005
gb|CX712768.1|CX712768 RTPQ1_4_D11.g2_A032 Roots treated wi... 48 2e-004
gb|DR017784.1|DR017784 STRS1_18_B01.g1_A034 Shoot tip pitch... 48 2e-004
gb|DR018453.1|DR018453 STRS1_23_C12.b1_A034 Shoot tip pitch... 48 2e-004
gb|DR018838.1|DR018838 STRS1_26_C05.b2_A034 Shoot tip pitch... 48 2e-004
gb|DR109651.1|DR109651 RTS1_3_F09.g1_A029 Roots minus sulfu... 46 7e-004
gb|CF386131.1|CF386131 RTDR1_8_G07.g1_A015 Loblolly pine ro... 44 0.003
gb|CF400174.1|CF400174 RTWW1_3_D03.g1_A015 Well-watered lob... 44 0.003
gb|CF401322.1|CF401322 RTWW1_11_F03.g1_A015 Well-watered lo... 44 0.003
gb|CF401914.1|CF401914 RTWW1_15_D09.g1_A015 Well-watered lo... 44 0.003
gb|CF477399.1|CF477399 RTWW3_7_F08.g1_A022 Well-watered lob... 44 0.003
gb|U90341.1|PRU90341 Pinus radiata chalcone synthase homolo... 44 0.003
emb|X60754.1|PSCHS P.sylvestris CHS gene for chalcone synthase 44 0.003
>gb|CO158433.1|CO158433 FLD1_6_H04.g1_A029 Root flooded Pinus taeda cDNA clone
FLD1_6_H04_A029 5', mRNA sequence
Length = 733
Score = 50.1 bits (25), Expect = 4e-005
Identities = 114/144 (79%)
Strand = Plus / Plus
Query: 13 taccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcggag 72
||||| ||||| || ||||| || |||||||| || ||||| || || || || || |||
Sbjct: 131 taccaacagggctgcttcgctggaggcacggttctccgcgtcgctaaagatctggcagag 190
Query: 73 aacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccgc 132
|||||||| || || ||||| ||||| || || ||| ||||||| ||| || |||||
Sbjct: 191 aacaaccggggagctcgggttctggtcgtctgtagcgaaatcacggccgttaccttccgt 250
Query: 133 ggcccctccgagtcgcacctcgac 156
||||||||||| | |||||||||
Sbjct: 251 ggcccctccgacactcacctcgac 274
>gb|CX712768.1|CX712768 RTPQ1_4_D11.g2_A032 Roots treated with paraquat Pinus taeda cDNA
clone RTPQ1_4_D11_A032 5', mRNA sequence
Length = 889
Score = 48.1 bits (24), Expect = 2e-004
Identities = 143/183 (78%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 536 gtaccaacagggctgcttcgctggaggcactgttctccgcgtggctaaagatctggcaga 595
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 596 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 655
Query: 132 cggcccctccgagtcgcacctcgactcgctcgtgggccaggcgctgttcggcgacggcgc 191
||||||||||| | ||||||||| | || ||||| || || ||||||||||||||
Sbjct: 656 tggcccctccgacactcacctcgacagtatggtcggccaagctctcttcggcgacggcgc 715
Query: 192 ggc 194
|||
Sbjct: 716 ggc 718
>gb|DR017784.1|DR017784 STRS1_18_B01.g1_A034 Shoot tip pitch canker susceptible Pinus taeda
cDNA clone STRS1_18_B01_A034 5', mRNA sequence
Length = 760
Score = 48.1 bits (24), Expect = 2e-004
Identities = 143/183 (78%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 512 gtaccaacagggctgcttcgctggaggcactgttctccgcgtggctaaagatctggcaga 571
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 572 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 631
Query: 132 cggcccctccgagtcgcacctcgactcgctcgtgggccaggcgctgttcggcgacggcgc 191
||||||||||| | ||||||||| | || ||||| || || ||||||||||||||
Sbjct: 632 tggcccctccgacactcacctcgacagtatggtcggccaagctctcttcggcgacggcgc 691
Query: 192 ggc 194
|||
Sbjct: 692 ggc 694
>gb|DR018453.1|DR018453 STRS1_23_C12.b1_A034 Shoot tip pitch canker susceptible Pinus taeda
cDNA clone STRS1_23_C12_A034 3', mRNA sequence
Length = 737
Score = 48.1 bits (24), Expect = 2e-004
Identities = 143/183 (78%)
Strand = Plus / Minus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 435 gtaccaacagggctgcttcgctggaggcactgttctccgcgtggctaaagatctggcaga 376
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 375 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 316
Query: 132 cggcccctccgagtcgcacctcgactcgctcgtgggccaggcgctgttcggcgacggcgc 191
||||||||||| | ||||||||| | || ||||| || || ||||||||||||||
Sbjct: 315 tggcccctccgacactcacctcgacagtatggtcggccaagctctcttcggcgacggcgc 256
Query: 192 ggc 194
|||
Sbjct: 255 ggc 253
>gb|DR018838.1|DR018838 STRS1_26_C05.b2_A034 Shoot tip pitch canker susceptible Pinus taeda
cDNA clone STRS1_26_C05_A034 3', mRNA sequence
Length = 752
Score = 48.1 bits (24), Expect = 2e-004
Identities = 143/183 (78%)
Strand = Plus / Minus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 276 gtaccaacagggctgcttcgctggaggcactgttctccgcgtggctaaagatctggcaga 217
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 216 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 157
Query: 132 cggcccctccgagtcgcacctcgactcgctcgtgggccaggcgctgttcggcgacggcgc 191
||||||||||| | ||||||||| | || ||||| || || ||||||||||||||
Sbjct: 156 tggcccctccgacactcacctcgacagtatggtcggccaagctctcttcggcgacggcgc 97
Query: 192 ggc 194
|||
Sbjct: 96 ggc 94
>gb|DR109651.1|DR109651 RTS1_3_F09.g1_A029 Roots minus sulfur Pinus taeda cDNA clone
RTS1_3_F09_A029 5', mRNA sequence
Length = 235
Score = 46.1 bits (23), Expect = 7e-004
Identities = 71/87 (81%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||||||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 99 gtaccagcagggctgcttcgctggaggcactgttctccgcgtggctaaagatctggcaga 158
Query: 72 gaacaaccgcggcgcgcgggtgctggt 98
||||||||| || || ||||| |||||
Sbjct: 159 gaacaaccggggagctcgggttctggt 185
>gb|CF386131.1|CF386131 RTDR1_8_G07.g1_A015 Loblolly pine roots recovering from drought DR1
Pinus taeda cDNA clone RTDR1_8_G07_A015 5', mRNA
sequence
Length = 782
Score = 44.1 bits (22), Expect = 0.003
Identities = 102/129 (79%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || || ||||| || || || || ||
Sbjct: 514 gtaccaacagggttgcttcgctggaggcaccgttctccgtgtggctaaagatctggcaga 573
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| ||||| |||||
Sbjct: 574 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgtcactttccg 633
Query: 132 cggcccctc 140
|||||||||
Sbjct: 634 cggcccctc 642
>gb|CF400174.1|CF400174 RTWW1_3_D03.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_3_D03_A015 5', mRNA sequence
Length = 686
Score = 44.1 bits (22), Expect = 0.003
Identities = 114/145 (78%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 256 gtaccaacagggctgcttcgccggaggcaccgttctccgcgtggctaaagatctggcaga 315
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 316 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 375
Query: 132 cggcccctccgagtcgcacctcgac 156
||||||||||| | |||||||||
Sbjct: 376 tggcccctccgacactcacctcgac 400
>gb|CF401322.1|CF401322 RTWW1_11_F03.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_11_F03_A015 5', mRNA sequence
Length = 763
Score = 44.1 bits (22), Expect = 0.003
Identities = 141/181 (77%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 552 gtaccaacagggctgcttcgctggaggcactgttctccgcgtggctaaagatctggcaga 611
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 612 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 671
Query: 132 cggcccctccgagtcgcacctcgactcgctcgtgggccaggcgctgttcggcgacggcgc 191
||||||||||| | ||||||||| | || ||||| || || ||||||||||||||
Sbjct: 672 tggcccctccgacactcacctcgacagtatggtcggccaagctctcttcggcgacggcgc 731
Query: 192 g 192
|
Sbjct: 732 g 732
>gb|CF401914.1|CF401914 RTWW1_15_D09.g1_A015 Well-watered loblolly pine roots WW1 Pinus
taeda cDNA clone RTWW1_15_D09_A015 5', mRNA sequence
Length = 684
Score = 44.1 bits (22), Expect = 0.003
Identities = 102/129 (79%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || || ||||| || || || || ||
Sbjct: 121 gtaccaacagggttgcttcgctggaggcaccgttctccgtgtggctaaagatctggcaga 180
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| ||||| |||||
Sbjct: 181 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgtcactttccg 240
Query: 132 cggcccctc 140
|||||||||
Sbjct: 241 cggcccctc 249
>gb|CF477399.1|CF477399 RTWW3_7_F08.g1_A022 Well-watered loblolly pine roots WW3 Pinus
taeda cDNA clone RTWW3_7_F08_A022 5', mRNA sequence
Length = 750
Score = 44.1 bits (22), Expect = 0.003
Identities = 114/145 (78%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 144 gtaccaacagggctgcttcgccggaggcaccgttctccgcgtggctaaagatctggcaga 203
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
||||||||| || || ||||| ||||| || ||| || ||||||| || || |||||
Sbjct: 204 gaacaaccggggagctcgggttctggtcgtctgcagtgaaatcacggctgttaccttccg 263
Query: 132 cggcccctccgagtcgcacctcgac 156
||||||||||| | |||||||||
Sbjct: 264 tggcccctccgacactcacctcgac 288
>gb|U90341.1|PRU90341 Pinus radiata chalcone synthase homolog PrChS1 mRNA, complete cds
Length = 1468
Score = 44.1 bits (22), Expect = 0.003
Identities = 37/42 (88%)
Strand = Plus / Plus
Query: 178 ttcggcgacggcgcggcggccgtggtcgtgggcgccgacccg 219
|||||||||||||||||||| |||| ||||| ||||||||
Sbjct: 696 ttcggcgacggcgcggcggcgatggtgttgggcaccgacccg 737
>emb|X60754.1|PSCHS P.sylvestris CHS gene for chalcone synthase
Length = 1401
Score = 44.1 bits (22), Expect = 0.003
Identities = 114/145 (78%)
Strand = Plus / Plus
Query: 12 gtaccagcaggggtggttcgcgggcggcacggtgctgcgcgtggccaaggacctcgcgga 71
|||||| ||||| || ||||| || ||||| || || |||||||| || || || || ||
Sbjct: 634 gtaccaacagggttgcttcgctggaggcaccgttctccgcgtggctaaagatctggctga 693
Query: 72 gaacaaccgcggcgcgcgggtgctggtggtgtgctccgagatcacggncgtcacgttccg 131
|||||| ||||| || ||||| ||||| || ||| || ||||| | ||||| |||||
Sbjct: 694 gaacaatcgcggagctcgggttctggttgtttgcagtgaaatcactgctgtcacattccg 753
Query: 132 cggcccctccgagtcgcacctcgac 156
||||||||||| | |||||||||
Sbjct: 754 tggcccctccgacactcacctcgac 778
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: 16,653
Number of Sequences: 355925
Number of extensions: 16653
Number of successful extensions: 5861
Number of sequences better than 0.5: 13
Number of HSP's better than 0.5 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 5844
Number of HSP's gapped (non-prelim): 14
length of query: 252
length of database: 217,277,237
effective HSP length: 18
effective length of query: 234
effective length of database: 210,870,587
effective search space: 49343717358
effective search space used: 49343717358
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)