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= QCM14d12.yg.2.1
(593 letters)
Database: Pinus_nucl_with_EST.fasta
355,925 sequences; 217,277,237 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|AY262820.1| Pinus radiata cellulose synthase (CesA10) mR... 58 4e-007
gb|DR059426.1|DR059426 RTNIT1_17_D03.g1_A029 Roots minus ni... 52 3e-005
gb|AY262821.1| Pinus radiata cellulose synthase (CesA2) mRN... 52 3e-005
gb|AA556522.1|AA556522 377 Loblolly pine C Pinus taeda cDNA... 48 4e-004
gb|CD022890.1|CD022890 NXPV_089_B01_F NXPV (Nsf Xylem Plani... 48 4e-004
gb|AY789650.1| Pinus taeda cellulose synthase catalytic sub... 48 4e-004
dbj|BD236020.1| Materials and method for modification of pl... 46 0.002
gb|AA556640.1|AA556640 495 Loblolly pine C Pinus taeda cDNA... 44 0.006
gb|DR080401.1|DR080401 RTFEPL1_22_A02.g1_A029 Roots plus ad... 44 0.006
gb|AY639654.1| Pinus radiata cellulose synthase catalytic s... 44 0.006
gb|AY789652.1| Pinus taeda cellulose synthase catalytic sub... 44 0.006
>gb|AY262820.1| Pinus radiata cellulose synthase (CesA10) mRNA, complete cds
Length = 4428
Score = 58.0 bits (29), Expect = 4e-007
Identities = 56/65 (86%)
Strand = Plus / Minus
Query: 460 gcttcaaaagtaagcattgcagcaccatcatccgacacatagcagcaaactttatcaaca 519
|||||||| || ||||||||||| ||||| || |||||||| || |||||||||||||
Sbjct: 1919 gcttcaaatgttagcattgcagctccatcgtcagacacataacatgaaactttatcaact 1860
Query: 520 ggata 524
|||||
Sbjct: 1859 ggata 1855
Score = 40.1 bits (20), Expect = 0.100
Identities = 29/32 (90%)
Strand = Plus / Minus
Query: 280 accttaaattcttcgtattctctcttcattgc 311
||||| || ||||| |||||||||||||||||
Sbjct: 2099 accttgaactcttcatattctctcttcattgc 2068
Score = 40.1 bits (20), Expect = 0.100
Identities = 35/40 (87%)
Strand = Plus / Minus
Query: 352 agatagtcaattttctgagcaaaataccattcaggagccc 391
|||||||| || || |||||||||||||| || |||||||
Sbjct: 2027 agatagtctatcttttgagcaaaataccactctggagccc 1988
>gb|DR059426.1|DR059426 RTNIT1_17_D03.g1_A029 Roots minus nitrogen Pinus taeda cDNA clone
RTNIT1_17_D03_A029 5', mRNA sequence
Length = 862
Score = 52.0 bits (26), Expect = 3e-005
Identities = 32/34 (94%)
Strand = Plus / Minus
Query: 278 gaaccttaaattcttcgtattctctcttcattgc 311
||||||| |||||||| |||||||||||||||||
Sbjct: 414 gaaccttgaattcttcatattctctcttcattgc 381
Score = 40.1 bits (20), Expect = 0.100
Identities = 64/80 (80%)
Strand = Plus / Minus
Query: 496 acatagcagcaaactttatcaacaggataatnnacagcnagtatggacaaaactgtgtnt 555
||||||||| |||| || ||||||||||||| |||| || || |||| ||| |||| |
Sbjct: 196 acatagcaggaaaccttgtcaacaggataatccacagacagaatcgacagaacagtgttt 137
Query: 556 gcaataattaaaggaggctc 575
||| ||| | |||||||||
Sbjct: 136 gcagtaacaagaggaggctc 117
>gb|AY262821.1| Pinus radiata cellulose synthase (CesA2) mRNA, partial cds
Length = 3603
Score = 52.0 bits (26), Expect = 3e-005
Identities = 32/34 (94%)
Strand = Plus / Minus
Query: 278 gaaccttaaattcttcgtattctctcttcattgc 311
||||||| |||||||| |||||||||||||||||
Sbjct: 1348 gaaccttgaattcttcatattctctcttcattgc 1315
Score = 40.1 bits (20), Expect = 0.100
Identities = 64/80 (80%)
Strand = Plus / Minus
Query: 496 acatagcagcaaactttatcaacaggataatnnacagcnagtatggacaaaactgtgtnt 555
||||||||| |||| || ||||||||||||| |||| || || |||| ||| |||| |
Sbjct: 1130 acatagcaggaaaccttgtcaacaggataatccacagacagaatcgacagaacagtgttt 1071
Query: 556 gcaataattaaaggaggctc 575
||| ||| | |||||||||
Sbjct: 1070 gcagtaacaagaggaggctc 1051
>gb|AA556522.1|AA556522 377 Loblolly pine C Pinus taeda cDNA clone 3C11G, mRNA sequence
Length = 718
Score = 48.1 bits (24), Expect = 4e-004
Identities = 83/104 (79%)
Strand = Plus / Minus
Query: 472 agcattgcagcaccatcatccgacacatagcagcaaactttatcaacaggataatnnaca 531
||||| || |||||||| || || |||||||| ||||||| || ||||| |||| |||
Sbjct: 434 agcatggccgcaccatcgtcagagacatagcaagaaactttctccacagggtaatccaca 375
Query: 532 gcnagtatggacaaaactgtgtntgcaataattaaaggaggctc 575
|| || ||||||| ||| |||| || ||| ||||||||||||
Sbjct: 374 gccagaatggacagaacggtgttggccgtaactaaaggaggctc 331
>gb|CD022890.1|CD022890 NXPV_089_B01_F NXPV (Nsf Xylem Planings wood Vertical) Pinus taeda
cDNA clone NXPV_089_B01 5' similar to Arabidopsis
thaliana sequence At5g64740 cellulose synthase see
http://mips.gsf.de/proj/thal/db/index.html, mRNA
sequence
Length = 151
Score = 48.1 bits (24), Expect = 4e-004
Identities = 83/104 (79%)
Strand = Plus / Minus
Query: 472 agcattgcagcaccatcatccgacacatagcagcaaactttatcaacaggataatnnaca 531
||||| || |||||||| || || |||||||| ||||||| || ||||| |||| |||
Sbjct: 108 agcatggccgcaccatcgtcagagacatagcaagaaactttctccacagggtaatccaca 49
Query: 532 gcnagtatggacaaaactgtgtntgcaataattaaaggaggctc 575
|| || ||||||| ||| |||| || ||| ||||||||||||
Sbjct: 48 gccagaatggacagaacggtgttggccgtaactaaaggaggctc 5
>gb|AY789650.1| Pinus taeda cellulose synthase catalytic subunit (CesA1) mRNA,
complete cds
Length = 3127
Score = 48.1 bits (24), Expect = 4e-004
Identities = 83/104 (79%)
Strand = Plus / Minus
Query: 472 agcattgcagcaccatcatccgacacatagcagcaaactttatcaacaggataatnnaca 531
||||| || |||||||| || || |||||||| ||||||| || ||||| |||| |||
Sbjct: 947 agcatggccgcaccatcgtcagagacatagcaagaaactttctccacagggtaatccaca 888
Query: 532 gcnagtatggacaaaactgtgtntgcaataattaaaggaggctc 575
|| || ||||||| ||| |||| || ||| ||||||||||||
Sbjct: 887 gccagaatggacagaacggtgttggccgtaactaaaggaggctc 844
>dbj|BD236020.1| Materials and method for modification of plant cell wall
polysaccharides
Length = 3851
Score = 46.1 bits (23), Expect = 0.002
Identities = 32/35 (91%)
Strand = Plus / Minus
Query: 280 accttaaattcttcgtattctctcttcattgcacg 314
||||| |||||||| |||||||||||||| |||||
Sbjct: 1576 accttgaattcttcatattctctcttcatggcacg 1542
Score = 44.1 bits (22), Expect = 0.006
Identities = 67/82 (81%)
Strand = Plus / Minus
Query: 352 agatagtcaattttctgagcaaaataccattcaggagcccgaggctcgattttgtgtttc 411
||||||||||||||||||| ||||| ||| ||||| |||||||| || | | ||||
Sbjct: 1504 agatagtcaattttctgagagaaatagatttcgggagcgcgaggctcaatgtcgaatttc 1445
Query: 412 ttacagaagggaacccattttc 433
|| ||||| || ||||||||||
Sbjct: 1444 ttgcagaatggtacccattttc 1423
>gb|AA556640.1|AA556640 495 Loblolly pine C Pinus taeda cDNA clone 2C7G, mRNA sequence
Length = 537
Score = 44.1 bits (22), Expect = 0.006
Identities = 67/82 (81%)
Strand = Plus / Minus
Query: 352 agatagtcaattttctgagcaaaataccattcaggagcccgaggctcgattttgtgtttc 411
||||||||||||||||||| ||||| ||| ||||| |||||||| || | | ||||
Sbjct: 283 agatagtcaattttctgagagaaatagatttcgggagcgcgaggctcaatgtcgaatttc 224
Query: 412 ttacagaagggaacccattttc 433
|| ||||| || ||||||||||
Sbjct: 223 ttgcagaatggtacccattttc 202
>gb|DR080401.1|DR080401 RTFEPL1_22_A02.g1_A029 Roots plus added iron Pinus taeda cDNA clone
RTFEPL1_22_A02_A029 5', mRNA sequence
Length = 741
Score = 44.1 bits (22), Expect = 0.006
Identities = 28/30 (93%)
Strand = Plus / Minus
Query: 78 tccaggccttttctcacgtgaaacatagac 107
||||||||| |||||||| |||||||||||
Sbjct: 353 tccaggcctcttctcacgagaaacatagac 324
>gb|AY639654.1| Pinus radiata cellulose synthase catalytic subunit (CesA1) mRNA,
complete cds
Length = 3911
Score = 44.1 bits (22), Expect = 0.006
Identities = 67/82 (81%)
Strand = Plus / Minus
Query: 352 agatagtcaattttctgagcaaaataccattcaggagcccgaggctcgattttgtgtttc 411
||||||||||||||||||| ||||| ||| ||||| |||||||| || | | ||||
Sbjct: 1520 agatagtcaattttctgagagaaatagatttcgggagcgcgaggctcaatgtcgaatttc 1461
Query: 412 ttacagaagggaacccattttc 433
|| ||||| || ||||||||||
Sbjct: 1460 ttgcagaatggtacccattttc 1439
Score = 42.1 bits (21), Expect = 0.025
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 280 accttaaattcttcgtattctctcttcat 308
||||| |||||||| ||||||||||||||
Sbjct: 1592 accttgaattcttcatattctctcttcat 1564
>gb|AY789652.1| Pinus taeda cellulose synthase catalytic subunit (CesA3) mRNA,
complete cds
Length = 3959
Score = 44.1 bits (22), Expect = 0.006
Identities = 67/82 (81%)
Strand = Plus / Minus
Query: 352 agatagtcaattttctgagcaaaataccattcaggagcccgaggctcgattttgtgtttc 411
||||||||||||||||||| ||||| ||| ||||| |||||||| || | | ||||
Sbjct: 1510 agatagtcaattttctgagagaaatagatttcgggagcgcgaggctcaatgtcgaatttc 1451
Query: 412 ttacagaagggaacccattttc 433
|| ||||| || ||||||||||
Sbjct: 1450 ttgcagaatggtacccattttc 1429
Score = 42.1 bits (21), Expect = 0.025
Identities = 27/29 (93%)
Strand = Plus / Minus
Query: 280 accttaaattcttcgtattctctcttcat 308
||||| |||||||| ||||||||||||||
Sbjct: 1582 accttgaattcttcatattctctcttcat 1554
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: 64,127
Number of Sequences: 355925
Number of extensions: 64127
Number of successful extensions: 15653
Number of sequences better than 0.5: 11
Number of HSP's better than 0.5 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 15618
Number of HSP's gapped (non-prelim): 35
length of query: 593
length of database: 217,277,237
effective HSP length: 19
effective length of query: 574
effective length of database: 210,514,662
effective search space: 120835415988
effective search space used: 120835415988
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 19 (38.2 bits)