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= QCM12g02.yg.2.1
(480 letters)
Database: Sorghum_nucl_with_EST.fasta
832,831 sequences; 491,359,669 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|CD428230.1|CD428230 ETH1_28_F10.g1_A002 Ethylene-treated... 391 e-107
gb|CL170431.1|CL170431 104_371_10813804_148_31790_124 Sorgh... 72 5e-011
gb|CD219775.1|CD219775 CCC1_58_A07.g1_A007 Callus culture/c... 72 5e-011
gb|BF657000.1|BF657000 OV2_19_G06.b1_A002 Ovary 2 (OV2) Sor... 52 5e-005
gb|BG355549.1|BG355549 EM1_17_G07.b1_A002 Embryo 1 (EM1) So... 52 5e-005
gb|BI643696.1|BI643696 EM1_19_F12.b1_A002 Embryo 1 (EM1) So... 52 5e-005
gb|CL170430.1|CL170430 104_371_10813804_116_31791_124 Sorgh... 50 2e-004
gb|CF482724.1|CF482724 POL1_8_F04.g1_A002 Pollen Sorghum bi... 48 7e-004
gb|CW173113.1|CW173113 104_584_11156668_148_36547_006 Sorgh... 44 0.012
>gb|CD428230.1|CD428230 ETH1_28_F10.g1_A002 Ethylene-treated seedlings Sorghum bicolor cDNA
clone ETH1_28_F10_A002 5', mRNA sequence
Length = 533
Score = 391 bits (197), Expect = e-107
Identities = 224/235 (95%)
Strand = Plus / Minus
Query: 1 acactgttttcaaccaatcaaaaccagacggattaaaagcaaatggagccataatccatg 60
||||||||||||||||| |||||||||| |||||||||||||||||||||||||||||||
Sbjct: 243 acactgttttcaaccaaccaaaaccagatggattaaaagcaaatggagccataatccatg 184
Query: 61 ataccaccagaaaccagctagatatatnnnnnnttatgtaaacaagtgtattcttggcaa 120
||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 183 ataccaccagaaaccagctagatatattcatgattatgtaaacaagtgtattcttggcaa 124
Query: 121 taacactgtgtgcagcatacacagtcaatattattccaagctctattgcctttatgaagt 180
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 123 taacactgtgtgcagcatacacagtcaatattattccaagttctattgcctttatgaagt 64
Query: 181 ggcccctagcatacagcctgtaattttcagcaaaactcttgtgctgcacaacaaa 235
||| |||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 63 ggctcctagcatacagcctgtaattttcagcaaatctcttgtgctgcacaacaaa 9
>gb|CL170431.1|CL170431 104_371_10813804_148_31790_124 Sorghum methylation-filtered library
(LibID: 104) Sorghum bicolor genomic clone 10813804, DNA
sequence
Length = 656
Score = 71.9 bits (36), Expect = 5e-011
Identities = 249/320 (77%)
Strand = Plus / Plus
Query: 135 gcatacacagtcaatattattccaagctctattgcctttatgaagtggcccctagcatac 194
||||||| ||| ||||| | ||||| ||||| || || ||||| |||| | ||||||
Sbjct: 57 gcatacagagttaatatcacaccaagttctatagctttgatgaaatggctgcgagcatag 116
Query: 195 agcctgtaattttcagcaaaactcttgtgctgcacaacaaaaccacggccagtagcacgg 254
||||| || ||||||||||| ||||||||| |||||||| || | |||||| || ||
Sbjct: 117 agcctatagttttcagcaaacttcttgtgctctacaacaaagcctctgccagtggcccga 176
Query: 255 tattttgcaccaccatgaaggattgtccggccatagtaatggctcttagttcccatggaa 314
|| || || || || |||||||| |||| ||||| || || |||| || ||||||||
Sbjct: 177 tacttcgctcctccgtgaaggatcgtcctcccataatagtgtgtctttgtccccatggag 236
Query: 315 aatgtgtagaacacagatgaaaaattcatttgcattgtgaagaaatcccagatagcaggt 374
||||||||||| ||||||| ||| | | |||||| | | ||||||||| |||||
Sbjct: 237 aatgtgtagaaaacagatgcaaactgtagctgcattttcatgaaatcccacgcagcagtg 296
Query: 375 aggaaaccttgttcaagagagttctctataatcattggcaatgcagtgaagaagccaagc 434
||||| || || ||||| ||||| || |||||||| || || || ||||| | ||| |||
Sbjct: 297 aggaacccatgctcaagtgagttttcaataatcatgggtaaagctgtgaacaggcctagc 356
Query: 435 tgtatgatgaactgctgatt 454
||||||| |||||||||||
Sbjct: 357 tgtatgacaaactgctgatt 376
>gb|CD219775.1|CD219775 CCC1_58_A07.g1_A007 Callus culture/cell suspension Sorghum bicolor
cDNA clone CCC1_58_A07_A007 5', mRNA sequence
Length = 669
Score = 71.9 bits (36), Expect = 5e-011
Identities = 249/320 (77%)
Strand = Plus / Minus
Query: 135 gcatacacagtcaatattattccaagctctattgcctttatgaagtggcccctagcatac 194
||||||| ||| ||||| | ||||| ||||| || || ||||| |||| | ||||||
Sbjct: 502 gcatacagagttaatatcacaccaagttctatagctttgatgaaatggctgcgagcatag 443
Query: 195 agcctgtaattttcagcaaaactcttgtgctgcacaacaaaaccacggccagtagcacgg 254
||||| || ||||||||||| ||||||||| |||||||| || | |||||| || ||
Sbjct: 442 agcctatagttttcagcaaacttcttgtgctctacaacaaagcctctgccagtggcccga 383
Query: 255 tattttgcaccaccatgaaggattgtccggccatagtaatggctcttagttcccatggaa 314
|| || || || || |||||||| |||| ||||| || || |||| || ||||||||
Sbjct: 382 tacttcgctcctccgtgaaggatcgtcctcccataatagtgtgtctttgtccccatggag 323
Query: 315 aatgtgtagaacacagatgaaaaattcatttgcattgtgaagaaatcccagatagcaggt 374
||||||||||| ||||||| ||| | | |||||| | | ||||||||| |||||
Sbjct: 322 aatgtgtagaaaacagatgcaaactgtagctgcattttcatgaaatcccacgcagcagtg 263
Query: 375 aggaaaccttgttcaagagagttctctataatcattggcaatgcagtgaagaagccaagc 434
||||| || || ||||| ||||| || |||||||| || || || ||||| | ||| |||
Sbjct: 262 aggaacccatgctcaagtgagttttcaataatcatgggtaaagctgtgaacaggcctagc 203
Query: 435 tgtatgatgaactgctgatt 454
||||||| |||||||||||
Sbjct: 202 tgtatgacaaactgctgatt 183
>gb|BF657000.1|BF657000 OV2_19_G06.b1_A002 Ovary 2 (OV2) Sorghum bicolor cDNA, mRNA
sequence
Length = 455
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Minus
Query: 195 agcctgtaattttcagcaaaactcttgtgctgcacaacaaaaccacggccagtagcacgg 254
||||| |||||||||||||| | ||||| | ||||||||||| | ||||||||
Sbjct: 420 agcctataattttcagcaaattttatgtgccgaacaacaaaacctcttccagtagcttta 361
Query: 255 tattttgcaccaccatgaaggattgt 280
|| |||||||||||||||||||||||
Sbjct: 360 tactttgcaccaccatgaaggattgt 335
>gb|BG355549.1|BG355549 EM1_17_G07.b1_A002 Embryo 1 (EM1) Sorghum bicolor cDNA, mRNA
sequence
Length = 502
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Minus
Query: 195 agcctgtaattttcagcaaaactcttgtgctgcacaacaaaaccacggccagtagcacgg 254
||||| |||||||||||||| | ||||| | ||||||||||| | ||||||||
Sbjct: 171 agcctataattttcagcaaattttatgtgccgaacaacaaaacctcttccagtagcttta 112
Query: 255 tattttgcaccaccatgaaggattgt 280
|| |||||||||||||||||||||||
Sbjct: 111 tactttgcaccaccatgaaggattgt 86
>gb|BI643696.1|BI643696 EM1_19_F12.b1_A002 Embryo 1 (EM1) Sorghum bicolor cDNA, mRNA
sequence
Length = 631
Score = 52.0 bits (26), Expect = 5e-005
Identities = 71/86 (82%)
Strand = Plus / Minus
Query: 195 agcctgtaattttcagcaaaactcttgtgctgcacaacaaaaccacggccagtagcacgg 254
||||| |||||||||||||| | ||||| | ||||||||||| | ||||||||
Sbjct: 171 agcctataattttcagcaaattttatgtgccgaacaacaaaacctcttccagtagcttta 112
Query: 255 tattttgcaccaccatgaaggattgt 280
|| |||||||||||||||||||||||
Sbjct: 111 tactttgcaccaccatgaaggattgt 86
>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 = 50.1 bits (25), Expect = 2e-004
Identities = 118/149 (79%)
Strand = Plus / Minus
Query: 306 cccatggaaaatgtgtagaacacagatgaaaaattcatttgcattgtgaagaaatcccag 365
|||||||| ||||||||||| ||||||| ||| | | |||||| | | |||||||||
Sbjct: 722 cccatggagaatgtgtagaaaacagatgcaaactgtagctgcattttcatgaaatcccac 663
Query: 366 atagcaggtaggaaaccttgttcaagagagttctctataatcattggcaatgcagtgaag 425
||||| ||||| || || ||||| ||||| || |||||||| || || || |||||
Sbjct: 662 gcagcagtgaggaacccatgctcaagtgagttttcaataatcatgggtaaagctgtgaac 603
Query: 426 aagccaagctgtatgatgaactgctgatt 454
| ||| |||||||||| |||||||||||
Sbjct: 602 aggcctagctgtatgacaaactgctgatt 574
>gb|CF482724.1|CF482724 POL1_8_F04.g1_A002 Pollen Sorghum bicolor cDNA clone
POL1_8_F04_A002 5', mRNA sequence
Length = 773
Score = 48.1 bits (24), Expect = 7e-004
Identities = 24/24 (100%)
Strand = Plus / Minus
Query: 258 tttgcaccaccatgaaggattgtc 281
||||||||||||||||||||||||
Sbjct: 34 tttgcaccaccatgaaggattgtc 11
>gb|CW173113.1|CW173113 104_584_11156668_148_36547_006 Sorghum methylation filtered library
(LibID: 104) Sorghum bicolor genomic clone 11156668, DNA
sequence
Length = 628
Score = 44.1 bits (22), Expect = 0.012
Identities = 46/54 (85%)
Strand = Plus / Minus
Query: 227 cacaacaaaaccacggccagtagcacggtattttgcaccaccatgaaggattgt 280
|||||| || |||||||| |||| | |||||||||||||||||| || |||||
Sbjct: 68 cacaacgaatccacggcctgtaggtctgtattttgcaccaccatggagtattgt 15
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: 116,575
Number of Sequences: 832831
Number of extensions: 116575
Number of successful extensions: 30469
Number of sequences better than 0.5: 9
Number of HSP's better than 0.5 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 30450
Number of HSP's gapped (non-prelim): 12
length of query: 480
length of database: 491,359,669
effective HSP length: 19
effective length of query: 461
effective length of database: 475,535,880
effective search space: 219222040680
effective search space used: 219222040680
T: 0
A: 0
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 20 (40.1 bits)