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= QAF41c07.yg.2.1
(691 letters)
Database: Sorghum_nucl_with_EST.fasta
832,831 sequences; 491,359,669 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CF074169.1|CF074169 FE1_21_G07.g1_A002 Iron-deficient se... 789 0.0
gb|BG054350.1|BG054350 OV2_3_C07.b1_A002 Ovary 2 (OV2) Sorg... 230 1e-058
gb|BG054341.1|BG054341 OV2_3_A09.b1_A002 Ovary 2 (OV2) Sorg... 62 7e-008
gb|CW473573.1|CW473573 fsbb001f229a03k0 Sorghum methylation... 58 1e-006
gb|CW243717.1|CW243717 104_704_11220201_148_37578_041 Sorgh... 52 7e-005
gb|CW883674.1|CW883674 Sorghum CISP Intron:I00_X00_F_PRSC1_... 44 0.017
gb|CW884311.1|CW884311 Sorghum CISP Intron:I00_X00_F_PRSC1_... 44 0.017
gb|CW133263.1|CW133263 104_517_11116666_116_34809_047 Sorgh... 42 0.067
gb|CL170430.1|CL170430 104_371_10813804_116_31791_124 Sorgh... 40 0.26
gb|CW318956.1|CW318956 104_811_11474232_116_35879_090 Sorgh... 40 0.26
gb|BG559259.1|BG559259 RHIZ2_52_F03.b1_A003 Rhizome2 (RHIZ2... 40 0.26
>gb|CF074169.1|CF074169 FE1_21_G07.g1_A002 Iron-deficient seedlings Sorghum bicolor cDNA
clone FE1_21_G07_A002 5', mRNA sequence
Length = 580
Score = 789 bits (398), Expect = 0.0
Identities = 462/486 (95%)
Strand = Plus / Minus
Query: 153 gcatatatatcttcgcttatattaatcactcgagacgccttgctaatgccacctcgggtt 212
|||||||||||||| |||||||||||||| || |||||||||||||||||||||||||||
Sbjct: 580 gcatatatatcttcacttatattaatcacacgggacgccttgctaatgccacctcgggtt 521
Query: 213 atgtgaaatatccgatcaaaaacatcaggatgtccatagtgcattcgaactttgaggtaa 272
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 atgtgaaatatccgatcaaaaacatcaggatgtccatagtgcattcgaactttgaggtaa 461
Query: 273 gcaagaacacgttgccccaaagtaacaaaactagtctcctgtttcgacataaatgacgcc 332
||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 gcaagaacacgctgccccaaagtaacaaaactagtctcctgtttcgacataaatgacgcc 401
Query: 333 agcgaagagacactccccgtgaatacatgctccctcacacctaggattgtgggcttccgt 392
||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||||||
Sbjct: 400 agcgaagagacactccccgtgaaaacatgctccctcacacctaggatggtgggcttccgt 341
Query: 393 atgccatgttttccatgagcattatgaaattcttcaagtaaatttctcattttcattgct 452
|||||||| ||||||||| ||||| |||| ||||||||||||||||||||||||||||||
Sbjct: 340 atgccatggtttccatgaacattacgaaactcttcaagtaaatttctcattttcattgct 281
Query: 453 tcctccaagtagttatcctgattcatatcgatcgtctgaactgcatctcctcgagtgaag 512
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 tcctccaagtagttatcctgattcatatcgatcgtctgaactgcatctcctcgagtgaag 221
Query: 513 attatggcatggttttggttctcaggtntgccttcaccnagcttggggttcccaggcaat 572
||||| |||| |||||||||||||||| ||||||| || ||||||||||||||||||| |
Sbjct: 220 attatagcatagttttggttctcaggtttgccttcgccaagcttggggttcccaggcagt 161
Query: 573 ttaatgcagtatatttcttggtctttgccatgaacatcannctncacnagcttggannaa 632
|||||||||||||||||||| |||||||||||||||||| || || |||||||| ||
Sbjct: 160 ttaatgcagtatatttcttgatctttgccatgaacatcagcctttacaagcttggaataa 101
Query: 633 tactct 638
||||||
Sbjct: 100 tactct 95
>gb|BG054350.1|BG054350 OV2_3_C07.b1_A002 Ovary 2 (OV2) Sorghum bicolor cDNA, mRNA sequence
Length = 466
Score = 230 bits (116), Expect = 1e-058
Identities = 147/160 (91%)
Strand = Plus / Minus
Query: 479 atcgatcgtctgaactgcatctcctcgagtgaagattatggcatggttttggttctcagg 538
||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 466 atcgatcgtctgaactgcatctcctcgagtgaagattatagcatggttttggttctcagg 407
Query: 539 tntgccttcaccnagcttggggttcccaggcaatttaatgcagtatatttcttggtcttt 598
| ||||||| || ||||||||||||||||||| ||||||||||||||||||||| |||||
Sbjct: 406 tttgccttcgccaagcttggggttcccaggcagtttaatgcagtatatttcttgatcttt 347
Query: 599 gccatgaacatcannctncacnagcttggannaatactct 638
||||||||||||| || || |||||||| ||||||||
Sbjct: 346 gccatgaacatcagcctttacaagcttggaataatactct 307
>gb|BG054341.1|BG054341 OV2_3_A09.b1_A002 Ovary 2 (OV2) Sorghum bicolor cDNA, mRNA sequence
Length = 528
Score = 61.9 bits (31), Expect = 7e-008
Identities = 52/59 (88%)
Strand = Plus / Minus
Query: 6 tctcggctgagaacttgctcaccattgcctccagcaactttcccctcaaatagtgcaat 64
|||||||| |||||||| |||||||| || ||||||||||| || ||||| ||||||||
Sbjct: 493 tctcggctaagaacttgttcaccatttccaccagcaacttttccttcaaagagtgcaat 435
>gb|CW473573.1|CW473573 fsbb001f229a03k0 Sorghum methylation filtered library (LibID: 104)
Sorghum bicolor genomic clone fsbb001f229a03, DNA
sequence
Length = 646
Score = 58.0 bits (29), Expect = 1e-006
Identities = 56/65 (86%)
Strand = Plus / Minus
Query: 189 gccttgctaatgccacctcgggttatgtgaaatatccgatcaaaaacatcaggatgtcca 248
|||||||| ||||| |||| || |||||||| |||| ||| || |||||||||||||||
Sbjct: 339 gccttgctgatgcctcctcttgtaatgtgaaaaatcctatcgaacacatcaggatgtcca 280
Query: 249 tagtg 253
|||||
Sbjct: 279 tagtg 275
Score = 48.1 bits (24), Expect = 0.001
Identities = 75/92 (81%)
Strand = Plus / Minus
Query: 21 tgctcaccattgcctccagcaactttcccctcaaatagtgcaatttggttcaagccaaca 80
||||| ||||| || | ||||||||| ||||||| || | |||||| || | || |||
Sbjct: 625 tgctccccatttccgcaagcaactttggcctcaaagagagaaatttgattgagacctaca 566
Query: 81 tcacgccctttccccacctggatatattcatg 112
||||||||||||||||| ||||| || |||||
Sbjct: 565 tcacgccctttccccacttggatgtactcatg 534
>gb|CW243717.1|CW243717 104_704_11220201_148_37578_041 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 11220201, DNA
sequence
Length = 587
Score = 52.0 bits (26), Expect = 7e-005
Identities = 35/38 (92%)
Strand = Plus / Minus
Query: 216 tgaaatatccgatcaaaaacatcaggatgtccatagtg 253
||||||||||||||||||| ||| ||||| ||||||||
Sbjct: 548 tgaaatatccgatcaaaaatatctggatgaccatagtg 511
>gb|CW883674.1|CW883674 Sorghum CISP Intron:I00_X00_F_PRSC1_002_SORG_BTXX BTXX Sorghum
bicolor genomic, DNA sequence
Length = 509
Score = 44.1 bits (22), Expect = 0.017
Identities = 31/34 (91%)
Strand = Plus / Minus
Query: 63 atttggttcaagccaacatcacgccctttcccca 96
|||||||||| ||||||||||||||||| ||||
Sbjct: 152 atttggttcattccaacatcacgccctttgccca 119
>gb|CW884311.1|CW884311 Sorghum CISP Intron:I00_X00_F_PRSC1_002_SORG_IS18 IS18 Sorghum
bicolor genomic, DNA sequence
Length = 501
Score = 44.1 bits (22), Expect = 0.017
Identities = 31/34 (91%)
Strand = Plus / Minus
Query: 63 atttggttcaagccaacatcacgccctttcccca 96
|||||||||| ||||||||||||||||| ||||
Sbjct: 144 atttggttcattccaacatcacgccctttgccca 111
>gb|CW133263.1|CW133263 104_517_11116666_116_34809_047 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 11116666, DNA
sequence
Length = 260
Score = 42.1 bits (21), Expect = 0.067
Identities = 54/65 (83%)
Strand = Plus / Plus
Query: 189 gccttgctaatgccacctcgggttatgtgaaatatccgatcaaaaacatcaggatgtcca 248
|||||||| ||||| |||| || |||||||| |||| ||| || || ||| ||||||||
Sbjct: 117 gccttgctgatgcctcctcttgtaatgtgaaaaatcctatccaacacgtcatgatgtcca 176
Query: 249 tagtg 253
|||||
Sbjct: 177 tagtg 181
>gb|CL170430.1|CL170430 104_371_10813804_116_31791_124 Sorghum methylation-filtered library
(LibID: 104) Sorghum bicolor genomic clone 10813804, DNA
sequence
Length = 746
Score = 40.1 bits (20), Expect = 0.26
Identities = 29/32 (90%)
Strand = Plus / Minus
Query: 87 cctttccccacctggatatattcatggtgtgt 118
||||| || ||||||||||| |||||||||||
Sbjct: 284 cctttaccaacctggatatactcatggtgtgt 253
>gb|CW318956.1|CW318956 104_811_11474232_116_35879_090 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 11474232, DNA
sequence
Length = 610
Score = 40.1 bits (20), Expect = 0.26
Identities = 20/20 (100%)
Strand = Plus / Plus
Query: 234 acatcaggatgtccatagtg 253
||||||||||||||||||||
Sbjct: 110 acatcaggatgtccatagtg 129
>gb|BG559259.1|BG559259 RHIZ2_52_F03.b1_A003 Rhizome2 (RHIZ2) Sorghum propinquum cDNA, mRNA
sequence
Length = 456
Score = 40.1 bits (20), Expect = 0.26
Identities = 29/32 (90%)
Strand = Plus / Minus
Query: 87 cctttccccacctggatatattcatggtgtgt 118
||||| || ||||||||||| |||||||||||
Sbjct: 184 cctttaccaacctggatatactcatggtgtgt 153
Database: Sorghum_nucl_with_EST.fasta
Posted date: Feb 7, 2006 2:54 PM
Number of letters in database: 491,359,669
Number of sequences in database: 832,831
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: 138,931
Number of Sequences: 832831
Number of extensions: 138931
Number of successful extensions: 37413
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: 37396
Number of HSP's gapped (non-prelim): 17
length of query: 691
length of database: 491,359,669
effective HSP length: 20
effective length of query: 671
effective length of database: 474,703,049
effective search space: 318525745879
effective search space used: 318525745879
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)