BLASTN 2.0.5 [May-5-1998] 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. Query= 01384 (419 letters) Database: /ddhome/DDsys/GenDB/UniGeneRn/Rn.seq.uniq 23,003 sequences; 15,818,664 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gnl|UG|Rn.16895 UI-R-A0-bb-g-02-0-UI.s1 Rattus norvegicus cDNA,... 202 6e-52 gnl|UG|Rn.33505 UI-R-Y0-ly-g-01-0-UI.s1 Rattus norvegicus cDNA,... 172 5e-43 gnl|UG|Rn.25774 Rattus norvegicus putative retrovirus-related g... 76 9e-14 gnl|UG|Rn.20225 UI-R-C2-nk-e-07-0-UI.s1 Rattus norvegicus cDNA,... 58 2e-08 gnl|UG|Rn.23540 UI-R-Y0-mk-b-01-0-UI.s1 Rattus norvegicus cDNA,... 52 1e-06 >gnl|UG|Rn.16895 UI-R-A0-bb-g-02-0-UI.s1 Rattus norvegicus cDNA, 3' end /clone=UI-R-A0-bb-g-02-0-UI /clone_end=3' /gb=AA858768 /gi=2948119 /len=449 Length = 449 Score = 202 bits (102), Expect = 6e-52 Identities = 150/166 (90%), Positives = 150/166 (90%) Query: 103 aagtagcaggggtgatagtggggtgattcgtgctccgccaatccctgaaggacaattagc 162 ||||||||| ||||||||||||||||||||||||| ||||||||||||| || |||||| Sbjct: 283 aagtagcagaggtgatagtggggtgattcgtgctctgccaatccctgaaagaaaattaga 342 Query: 163 atagccacagcctgttgtatatataaggcgagcgcttttgccactcgaggtccctgtatc 222 |||||| ||| |||||||||||||||||||||||| ||||| || |||||||| ||||| Sbjct: 343 atagccccagtctgttgtatatataaggcgagcgcctttgctgcttgaggtccccgtatc 402 Query: 223 agcaaagaggtggtcctgccagaaaggctgtggagaagaatccgac 268 ||||| ||||||||||||| | ||||||||| |||||||||||||| Sbjct: 403 agcaatgaggtggtcctgcaataaaggctgttgagaagaatccgac 448 >gnl|UG|Rn.33505 UI-R-Y0-ly-g-01-0-UI.s1 Rattus norvegicus cDNA, 3' end /clone=UI-R-Y0-ly-g-01-0-UI /clone_end=3' /gb=AI072727 /gi=3398921 /len=295 Length = 295 Score = 172 bits (87), Expect = 5e-43 Identities = 126/139 (90%), Positives = 126/139 (90%) Query: 124 ggtgattcgtgctccgccaatccctgaaggacaattagcatagccacagcctgttgtata 183 ||||||||||||||||||||||| ||||||||||||||||||||||||||||| ||| || Sbjct: 154 ggtgattcgtgctccgccaatccatgaaggacaattagcatagccacagcctgctgtgta 95 Query: 184 tataaggcgagcgcttttgccactcgaggtccctgtatcagcaaagaggtggtcctgcca 243 ||||||| || |||||||| ||||| ||||| |||||||||||||||||||||||| | Sbjct: 94 tataaggaaagtgcttttgctgctcgaagtccccgtatcagcaaagaggtggtcctgcaa 35 Query: 244 gaaaggctgtggagaagaa 262 ||||||||| |||||||| Sbjct: 34 taaaggctgttgagaagaa 16 Score = 38.2 bits (19), Expect = 0.020 Identities = 19/19 (100%), Positives = 19/19 (100%) Query: 55 tggtaatatgctaatgagg 73 ||||||||||||||||||| Sbjct: 193 tggtaatatgctaatgagg 175 >gnl|UG|Rn.25774 Rattus norvegicus putative retrovirus-related gag protein mRNA, complete cds /cds=(522,920) /gb=AF057564 /gi=3063656 /len=1671 Length = 1671 Score = 75.8 bits (38), Expect = 9e-14 Identities = 77/90 (85%), Positives = 77/90 (85%) Query: 213 tccctgtatcagcaaagaggtggtcctgccagaaaggctgtggagaagaatccgaccgtg 272 ||||||||||| |||||| | |||||| ||||||||| ||||||||||| |||||| Sbjct: 48 tccctgtatcaacaaagaaggtctcctgcagtaaaggctgttgagaagaatccaaccgtg 107 Query: 273 tggtgtcttccttgccggacaaggtgggcg 302 | | |||||||||||||||| ||||||||| Sbjct: 108 ttgcgtcttccttgccggacgaggtgggcg 137 >gnl|UG|Rn.20225 UI-R-C2-nk-e-07-0-UI.s1 Rattus norvegicus cDNA, 3' end /clone=UI-R-C2-nk-e-07-0-UI /clone_end=3' /gb=AI072680 /gi=3398874 /len=440 Length = 440 Score = 58.0 bits (29), Expect = 2e-08 Identities = 86/106 (81%), Positives = 86/106 (81%), Gaps = 8/106 (7%) Query: 111 ggggtgatagtggggtgattcgtgctccgccaatccctgaaggacaattagcatagccac 170 ||||||||||| |||||| ||||| || ||||||||||||||| ||||||||| Sbjct: 147 ggggtgatagtagggtgacccgtgccccaccaatccctgaaggattattagcata----- 93 Query: 171 agcctgttgtatatataaggcgagcgcttttgccactcgaggtccc 216 ||||||| |||||||||||||| |||||| | ||||| ||||| Sbjct: 92 ---ctgttgtgtatataaggcgagcacttttgacgctcgacgtccc 50 Score = 34.2 bits (17), Expect = 0.32 Identities = 17/17 (100%), Positives = 17/17 (100%) Query: 57 gtaatatgctaatgagg 73 ||||||||||||||||| Sbjct: 244 gtaatatgctaatgagg 228 Score = 34.2 bits (17), Expect = 0.32 Identities = 20/21 (95%), Positives = 20/21 (95%) Query: 26 gttttgcacctggtgtcagtt 46 ||||||||| ||||||||||| Sbjct: 270 gttttgcacttggtgtcagtt 250 Score = 32.2 bits (16), Expect = 1.3 Identities = 34/40 (85%), Positives = 34/40 (85%) Query: 118 tagtggggtgattcgtgctccgccaatccctgaaggacaa 157 ||||| |||||||| | | ||||||||||| | ||||||| Sbjct: 214 tagtgaggtgattcattccccgccaatccccggaggacaa 175 >gnl|UG|Rn.23540 UI-R-Y0-mk-b-01-0-UI.s1 Rattus norvegicus cDNA, 3' end /clone=UI-R-Y0-mk-b-01-0-UI /clone_end=3' /gb=AI111380 /gi=3511422 /len=372 Length = 372 Score = 52.0 bits (26), Expect = 1e-06 Identities = 74/90 (82%), Positives = 74/90 (82%) Query: 76 ttcatgctccgcctatccctgaaggaaaagtagcaggggtgatagtggggtgattcgtgc 135 ||||||| |||| ||| ||| |||| ||||||| ||| || |||||||||| |||||| Sbjct: 269 ttcatgcctcgccaatctctggaggacaagtagctgggatggcagtggggtgactcgtgc 210 Query: 136 tccgccaatccctgaaggacaattagcata 165 || |||||||||||| || ||||||||| Sbjct: 209 cccaccaatccctgaaagaagattagcata 180 Score = 36.2 bits (18), Expect = 0.080 Identities = 42/50 (84%), Positives = 42/50 (84%) Query: 213 tccctgtatcagcaaagaggtggtcctgccagaaaggctgtggagaagaa 262 ||||||||||| |||||| | ||||||| ||||||||| |||||||| Sbjct: 65 tccctgtatcaacaaagaaggtgtcctgcagtaaaggctgttgagaagaa 16 Database: /ddhome/DDsys/GenDB/UniGeneRn/Rn.seq.uniq Posted date: Feb 19, 1999 3:28 AM Number of letters in database: 15,818,664 Number of sequences in database: 23,003 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: 3155 Number of Sequences: 23003 Number of extensions: 3155 Number of successful extensions: 855 Number of sequences better than 10: 25 length of query: 419 length of database: 15818664 effective HSP length: 16 effective length of query: 403 effective length of database: 15450616 effective search space: 6226598248 T: 0 A: 0 X1: 6 (11.9 bits) X2: 25 (49.6 bits) S1: 0 ( 0.5 bits) S2: 15 (30.2 bits)