BLASTN 2.2.14 [May-07-2006]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.
Database: LTR_STRUC_8x_na 
           791 sequences; 6,808,925 total letters

Searching

Query= jgi|Phypa1|75037|fgenesh1_pg.scaffold_51000008
         (2511 letters)



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_5_1_Scaffolds_seq10928_PT_B1_L1_270_rprt_txt                1356   0.0  

>scaffold_5_1_Scaffolds_seq10928_PT_B1_L1_270_rprt_txt
          Length = 16463

 Score = 1356 bits (684), Expect = 0.0
 Identities = 684/684 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1088 ctacaatacgaggtacaataggttgggaggatcctgttgaatctctttcagttcatgcat 1147
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8914 ctacaatacgaggtacaataggttgggaggatcctgttgaatctctttcagttcatgcat 8973

                                                                        
Query: 1148 atattgctaagagccaacatgaagctttgatggaagaaaagaaacgaggaaattttgatg 1207
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8974 atattgctaagagccaacatgaagctttgatggaagaaaagaaacgaggaaattttgatg 9033

                                                                        
Query: 1208 atacgagagaaggaaattcttctaagaggcaaactcgaggagacaaggctcgggaggcag 1267
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9034 atacgagagaaggaaattcttctaagaggcaaactcgaggagacaaggctcgggaggcag 9093

                                                                        
Query: 1268 cttcacaagaattgcctctaaaggatacctcaacatcattggaagaaaaaacaagggaga 1327
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9094 cttcacaagaattgcctctaaaggatacctcaacatcattggaagaaaaaacaagggaga 9153

                                                                        
Query: 1328 caaatgataagggcaaatcaattgcttataaactactttctgacattgaagtggcaacaa 1387
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9154 caaatgataagggcaaatcaattgcttataaactactttctgacattgaagtggcaacaa 9213

                                                                        
Query: 1388 atttgaaaggggtgttggaagaacgtatattaaatgctaaggtggaattcacattgaaag 1447
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9214 atttgaaaggggtgttggaagaacgtatattaaatgctaaggtggaattcacattgaaag 9273

                                                                        
Query: 1448 aagttttggaaattgcaaagaaggagtttcatgatgttatcattgacagcattaagcaaa 1507
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9274 aagttttggaaattgcaaagaaggagtttcatgatgttatcattgacagcattaagcaaa 9333

                                                                        
Query: 1508 agagaaaattaatggacaaaactggaatgagtcatactattgatgcaagaatatataaag 1567
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9334 agagaaaattaatggacaaaactggaatgagtcatactattgatgcaagaatatataaag 9393

                                                                        
Query: 1568 atgaagaagaggttgatattggttacaagcaactaaaaaatgaaaagaataggtataatc 1627
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9394 atgaagaagaggttgatattggttacaagcaactaaaaaatgaaaagaataggtataatc 9453

                                                                        
Query: 1628 aacgaatacgttttgaagattatattgataaggaaatggaaaccttgagccattatactc 1687
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9454 aacgaatacgttttgaagattatattgataaggaaatggaaaccttgagccattatactc 9513

                                                                        
Query: 1688 gaaagcattggacaagagcaactaatgaggtattggtgaaagtaggagatatagaagaac 1747
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9514 gaaagcattggacaagagcaactaatgaggtattggtgaaagtaggagatatagaagaac 9573

                                    
Query: 1748 caattgttgttttagttgaccatg 1771
            ||||||||||||||||||||||||
Sbjct: 9574 caattgttgttttagttgaccatg 9597



 Score = 1154 bits (582), Expect = 0.0
 Identities = 582/582 (100%)
 Strand = Plus / Plus

                                                                         
Query: 1930  ccagattatggaggtacaaaagaggaggtactctctcgagatgaaggtgccattgatgta 1989
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10015 ccagattatggaggtacaaaagaggaggtactctctcgagatgaaggtgccattgatgta 10074

                                                                         
Query: 1990  agttttattggtattttggagaatgaaaatattatgtataagaaagttgatgattttaaa 2049
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10075 agttttattggtattttggagaatgaaaatattatgtataagaaagttgatgattttaaa 10134

                                                                         
Query: 2050  agaaaagaaagaaaaaaaatatatcatattgaaggagaattatgcaagttaggtacattg 2109
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10135 agaaaagaaagaaaaaaaatatatcatattgaaggagaattatgcaagttaggtacattg 10194

                                                                         
Query: 2110  caagatgatgagaggattttaggtgtttatgaagaaaatgggctggaagattcattggaa 2169
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10195 caagatgatgagaggattttaggtgtttatgaagaaaatgggctggaagattcattggaa 10254

                                                                         
Query: 2170  ttgattacatctattcggttagaagataatgataagattgttgagattcattcgaaagaa 2229
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10255 ttgattacatctattcggttagaagataatgataagattgttgagattcattcgaaagaa 10314

                                                                         
Query: 2230  gtttataccatacttgaatcttttcaagcaccagaagtcactatagagacaagatataaa 2289
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10315 gtttataccatacttgaatcttttcaagcaccagaagtcactatagagacaagatataaa 10374

                                                                         
Query: 2290  atggcagataagaagataaagcctgttgccggaccattaccaaaagattctaaggaacaa 2349
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10375 atggcagataagaagataaagcctgttgccggaccattaccaaaagattctaaggaacaa 10434

                                                                         
Query: 2350  atgggagaagaatcaaaagaagcaagtttaagggatccaatgagtattggacatcagttt 2409
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10435 atgggagaagaatcaaaagaagcaagtttaagggatccaatgagtattggacatcagttt 10494

                                                                         
Query: 2410  actaaagagacttttgaagaattgaagattgattctgatggttctttattgccggaagaa 2469
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10495 actaaagagacttttgaagaattgaagattgattctgatggttctttattgccggaagaa 10554

                                                       
Query: 2470  attacttacttcaaaaagatgttggctaaacaaggtagatag 2511
             ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 10555 attacttacttcaaaaagatgttggctaaacaaggtagatag 10596



 Score =  918 bits (463), Expect = 0.0
 Identities = 463/463 (100%)
 Strand = Plus / Plus

                                                                        
Query: 336  ggaatatttcaaggtatttacgataccaaagataagagaccatattacattgattacgga 395
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7931 ggaatatttcaaggtatttacgataccaaagataagagaccatattacattgattacgga 7990

                                                                        
Query: 396  tcgttatggaaattcatgggaggttttttcacatgcattgaaagatgaatatttcttgga 455
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7991 tcgttatggaaattcatgggaggttttttcacatgcattgaaagatgaatatttcttgga 8050

                                                                        
Query: 456  agatgctgatcacattactaagaagttgtttctggaatggattgaacggcctaataagaa 515
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8051 agatgctgatcacattactaagaagttgtttctggaatggattgaacggcctaataagaa 8110

                                                                        
Query: 516  tttacaagcaacagagctactaagggaatttgagaggcagtactctcaattattgaaggt 575
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8111 tttacaagcaacagagctactaagggaatttgagaggcagtactctcaattattgaaggt 8170

                                                                        
Query: 576  agaaaaattgacattggagccgaacaaatttgatctatttcttcaagctgctgatggaga 635
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8171 agaaaaattgacattggagccgaacaaatttgatctatttcttcaagctgctgatggaga 8230

                                                                        
Query: 636  attgcaagggaaattagaattccttcttgaagacaaagaagaaggtgaaggattgacaac 695
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8231 attgcaagggaaattagaattccttcttgaagacaaagaagaaggtgaaggattgacaac 8290

                                                                        
Query: 696  aaagtggaagaacattgaagatgcggtggagttgcttacaaaaagagaaaggaggaaaga 755
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8291 aaagtggaagaacattgaagatgcggtggagttgcttacaaaaagagaaaggaggaaaga 8350

                                                       
Query: 756  taggagtaatattccgaaaatagtacaagcacccaaagctcca 798
            |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8351 taggagtaatattccgaaaatagtacaagcacccaaagctcca 8393



 Score =  573 bits (289), Expect = e-163
 Identities = 289/289 (100%)
 Strand = Plus / Plus

                                                                        
Query: 799  aatgtttcaaaacaaggatatgtacaaagatgcatttggtgtgatgatgctttatacact 858
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8550 aatgtttcaaaacaaggatatgtacaaagatgcatttggtgtgatgatgctttatacact 8609

                                                                        
Query: 859  aggaaagattgcaatgaatttaataatatgatacggcaaggaattatttgctggaaagat 918
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8610 aggaaagattgcaatgaatttaataatatgatacggcaaggaattatttgctggaaagat 8669

                                                                        
Query: 919  ggaaagatagcattaaaagatagggaggatcttcttctaaccaactttgacaagagagga 978
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8670 ggaaagatagcattaaaagatagggaggatcttcttctaaccaactttgacaagagagga 8729

                                                                        
Query: 979  atgagagcattggttcaagattacttaaaagagcatgaaacagcagcacgagaaagtaca 1038
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8730 atgagagcattggttcaagattacttaaaagagcatgaaacagcagcacgagaaagtaca 8789

                                                             
Query: 1039 agttatggtgctagagtagatgatgaccttagtggaagtacggaaacta 1087
            |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8790 agttatggtgctagagtagatgatgaccttagtggaagtacggaaacta 8838



 Score =  315 bits (159), Expect = 2e-85
 Identities = 159/159 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1771 gctaataacacatggggcgaattatatggagctcgtccagatgtcaaaatttggattggg 1830
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9684 gctaataacacatggggcgaattatatggagctcgtccagatgtcaaaatttggattggg 9743

                                                                        
Query: 1831 gatgttgcgacggagcaacatttctttgttcaagatacaacgtcttatccgttgatttta 1890
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9744 gatgttgcgacggagcaacatttctttgttcaagatacaacgtcttatccgttgatttta 9803

                                                   
Query: 1891 gaacaaccttatattatggcaatacggatggaaacaaaa 1929
            |||||||||||||||||||||||||||||||||||||||
Sbjct: 9804 gaacaaccttatattatggcaatacggatggaaacaaaa 9842



 Score =  230 bits (116), Expect = 7e-60
 Identities = 116/116 (100%)
 Strand = Plus / Plus

                                                                        
Query: 95   acagtcagtggatacaagatcgtgagtataaagcggtatcgaagattagcagattgggtt 154
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7360 acagtcagtggatacaagatcgtgagtataaagcggtatcgaagattagcagattgggtt 7419

                                                                    
Query: 155  gttcgggattctttgtaacgtctagagacctaccggctgaggcaaaaaggattttg 210
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7420 gttcgggattctttgtaacgtctagagacctaccggctgaggcaaaaaggattttg 7475



 Score =  186 bits (94), Expect = 1e-46
 Identities = 94/94 (100%)
 Strand = Plus / Plus

                                                                        
Query: 1    atggtgtttaattgggcagcttatgtagcaactcgtattcatgcggaaatgggagccaag 60
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6461 atggtgtttaattgggcagcttatgtagcaactcgtattcatgcggaaatgggagccaag 6520

                                              
Query: 61   tgcaaaatagagaagtttacagtgttgtcgtatt 94
            ||||||||||||||||||||||||||||||||||
Sbjct: 6521 tgcaaaatagagaagtttacagtgttgtcgtatt 6554



 Score =  182 bits (92), Expect = 2e-45
 Identities = 110/116 (94%)
 Strand = Plus / Plus

                                                                         
Query: 95    acagtcagtggatacaagatcgtgagtataaagcggtatcgaagattagcagattgggtt 154
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14136 acagtcagtggatacaagatcgtgagtataaagcggtatcgaagattagcagattgggtt 14195

                                                                     
Query: 155   gttcgggattctttgtaacgtctagagacctaccggctgaggcaaaaaggattttg 210
             ||||||| |||| ||||| ||||||||||||||| |||| | ||||||||||||||
Sbjct: 14196 gttcggggttctctgtaatgtctagagacctaccagctgggacaaaaaggattttg 14251



 Score =  139 bits (70), Expect = 2e-32
 Identities = 70/70 (100%)
 Strand = Plus / Plus

                                                                        
Query: 210  gagaacgaaaataaaaattttgaaggatctttgggaggagtttctggtggaggttcttct 269
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7717 gagaacgaaaataaaaattttgaaggatctttgggaggagtttctggtggaggttcttct 7776

                      
Query: 270  caaggacaag 279
            ||||||||||
Sbjct: 7777 caaggacaag 7786



 Score =  119 bits (60), Expect = 2e-26
 Identities = 60/60 (100%)
 Strand = Plus / Plus

                                                                        
Query: 278  agcaacagcaaagcaatgatcaagaggaagctttggcaaccaaagcattgcaagcagtgg 337
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7844 agcaacagcaaagcaatgatcaagaggaagctttggcaaccaaagcattgcaagcagtgg 7903


  Database: LTR_STRUC_8x_na
    Posted date:  Sep 4, 2006  3:29 PM
  Number of letters in database: 6,808,925
  Number of sequences in database:  791
  
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 Sequences: 791
Number of Hits to DB: 350,368
Number of extensions: 23312
Number of successful extensions: 1851
Number of sequences better than 1.0e-04: 233
Number of HSP's gapped: 1699
Number of HSP's successfully gapped: 1236
Length of query: 2511
Length of database: 6,808,925
Length adjustment: 17
Effective length of query: 2494
Effective length of database: 6,795,478
Effective search space: 16947922132
Effective search space used: 16947922132
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 15 (30.2 bits)
S2: 24 (48.1 bits)


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.
Database: LTR_STRUC_8x_na 
           791 sequences; 6,808,925 total letters

Searching

Query= jgi|Phypa1|96131|fgenesh1_pg.scaffold_296000015
         (456 letters)



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_5_6_Scaffolds_seq_8392_PT_B8_L9_282_rprt_txt                 276   2e-74

>scaffold_5_6_Scaffolds_seq_8392_PT_B8_L9_282_rprt_txt
          Length = 8149

 Score =  276 bits (139), Expect = 2e-74
 Identities = 157/163 (96%)
 Strand = Plus / Minus

                                                                        
Query: 1    atgaatatgaaagaccttaatgaaggtacagagattccacagcaaaaagatgaaagtgat 60
            ||||||||| |||||||||||||||||||||||||||| |||||| ||||||||||||||
Sbjct: 1524 atgaatatggaagaccttaatgaaggtacagagattccgcagcaagaagatgaaagtgat 1465

                                                                        
Query: 61   atggataatgaaggtgacgaagacgaactggacaaagacgtaggggatatattcagaatc 120
            |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 1464 atggataatgaaggtgacgaagacgaactggacaaagacgtaggggatatattctgaatc 1405

                                                       
Query: 121  aaacagcaattgggtaaattggtgcataccggaggatgcacag 163
            ||| ||||||||| |||||||||||||||||||||||||||||
Sbjct: 1404 aaatagcaattggataaattggtgcataccggaggatgcacag 1362



 Score =  151 bits (76), Expect = 9e-37
 Identities = 100/108 (92%)
 Strand = Plus / Minus

                                                                        
Query: 164  tcgtttatattccagcagtcaaaactgatagactgcttgactatcgacgaatctccatac 223
            ||||||||||||||||||| |||||||||||||||||||||||||| || ||||||||||
Sbjct: 6919 tcgtttatattccagcagtaaaaactgatagactgcttgactatcggcggatctccatac 6860

                                                            
Query: 224  taccttctacagctagacgcccgacgcgttctcgagcaggaaagcacg 271
            ||||||||| ||| ||| ||||| ||||||||||||||||| ||||||
Sbjct: 6859 taccttctagagccagaggcccggcgcgttctcgagcaggagagcacg 6812



 Score =  143 bits (72), Expect = 2e-34
 Identities = 96/104 (92%)
 Strand = Plus / Minus

                                                                       
Query: 161 cagtcgtttatattccagcagtcaaaactgatagactgcttgactatcgacgaatctcca 220
           |||||||||||||| ||||||| |||||||||||||||||||||||||| || |||||||
Sbjct: 120 cagtcgtttatatttcagcagtaaaaactgatagactgcttgactatcggcggatctcca 61

                                                       
Query: 221 tactaccttctacagctagacgcccgacgcgttctcgagcagga 264
           |||||||||||| ||| ||||||||| | |||||||||||||||
Sbjct: 60  tactaccttctagagccagacgcccggctcgttctcgagcagga 17



 Score = 60.0 bits (30), Expect = 3e-09
 Identities = 42/46 (91%)
 Strand = Plus / Minus

                                                         
Query: 312 ggagccaattctagatccaagacggaagattgaagaaattcagagg 357
           |||||||||||  |||| |||| |||||||||||||||||||||||
Sbjct: 739 ggagccaattccggatctaagatggaagattgaagaaattcagagg 694



 Score = 52.0 bits (26), Expect = 6e-07
 Identities = 41/46 (89%)
 Strand = Plus / Minus

                                                          
Query: 312  ggagccaattctagatccaagacggaagattgaagaaattcagagg 357
            ||||||||||   |||| |||| |||||||||||||||||||||||
Sbjct: 7543 ggagccaatttcggatctaagatggaagattgaagaaattcagagg 7498


  Database: LTR_STRUC_8x_na
    Posted date:  Sep 4, 2006  3:29 PM
  Number of letters in database: 6,808,925
  Number of sequences in database:  791
  
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 Sequences: 791
Number of Hits to DB: 50,062
Number of extensions: 3603
Number of successful extensions: 1243
Number of sequences better than 1.0e-04: 157
Number of HSP's gapped: 985
Number of HSP's successfully gapped: 621
Length of query: 456
Length of database: 6,808,925
Length adjustment: 16
Effective length of query: 440
Effective length of database: 6,796,269
Effective search space: 2990358360
Effective search space used: 2990358360
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 14 (28.2 bits)
S2: 23 (46.1 bits)
