Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, 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: Rattus_20norvegicus_20[refseq_20GCF_5F000001895.5_202014-07-01] 955 sequences; 2,870,184,193 total letters Query= NC_033775.1 Length=376207 Score E Sequences producing significant alignments: (Bits) Value seq97 163 7e-35 seq174 154 4e-32 seq232 132 1e-25 seq312 123 6e-23 seq297 107 5e-18 seq129 102 2e-16 seq154 87.8 4e-12 seq1 86.0 2e-11 >seq97 Length=173707219 Score = 163 bits (180), Expect = 7e-35 Identities = 171/222 (77%), Gaps = 7/222 (3%) Strand=Plus/Plus Query 177910 AGGTTAAAATGCTCCAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACCCTCGAGG 177969 |||| ||||||| |||| |||||||| || || || || || || |||||||| |||| Sbjct 138042722 AGGTCAAAATGC---AAATCTTCGTGAAGACCCTGACCGGCAAGACCATCACCCTGGAGG 138042778 Query 177970 TGGAAAGCTCAG--ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAAT 178027 |||| || ||| |||||||||||||||| || ||||| ||||| ||||| || || Sbjct 138042779 TGGA--GCCCAGTGACACCATCGAGAACGTGAAGGCCAAGATCCAGGATAAAGAGGGCAT 138042836 Query 178028 CCCTCCGGACCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCT 178087 ||| || |||||||| | || ||||| ||||| || ||||| |||||||| | || || Sbjct 138042837 CCCCCCTGACCAGCAGAGGCTCATCTTTGCCGGCAAGCAGCTGGAAGATGGCCGCACCCT 138042896 Query 178088 TGCCGATTATAACGTCCAAAAAGAATCAACACTGCATCTTGT 178129 | ||||| ||| |||| ||||| ||||| ||||| || || Sbjct 138042897 CTCTGATTACAACATCCAGAAAGAGTCAACCCTGCACCTGGT 138042938 >seq174 Length=112626471 Score = 154 bits (170), Expect = 4e-32 Identities = 160/208 (77%), Gaps = 4/208 (2%) Strand=Plus/Plus Query 177924 CAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACCCTCGAGGTGGAAAGCTCAG-- 177981 || || |||||||| || || || || || || |||||||| |||||||| || ||| Sbjct 48881517 CAGATCTTCGTGAAGACCCTGACCGGCAAGACCATCACCCTGGAGGTGGA--GCCCAGTG 48881574 Query 177982 ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGACCAGC 178041 |||||||||||||||| || ||||| ||||| ||||| || ||||| || ||||||| Sbjct 48881575 ACACCATCGAGAACGTGAAGGCCAAGATCCAGGATAAAGAGGGCATCCCCCCTGACCAGC 48881634 Query 178042 AACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTATAACG 178101 | | || ||||| ||||| || ||||| |||||||| | || || | ||||| ||| Sbjct 48881635 AGAGGCTCATCTTTGCCGGCAAGCAGCTGGAAGATGGCCGCACCCTCTCTGATTACAACA 48881694 Query 178102 TCCAAAAAGAATCAACACTGCATCTTGT 178129 |||| ||||| ||||| ||||| || || Sbjct 48881695 TCCAGAAAGAGTCAACCCTGCACCTGGT 48881722 Score = 154 bits (170), Expect = 4e-32 Identities = 170/223 (76%), Gaps = 9/223 (4%) Strand=Plus/Minus Query 177910 AGGTTAAAATGCTCCAAATTTTC-GTGAAAACTCTCACAGGAAAAACGATCACCCTCGAG 177968 |||| ||||||| |||| || ||||| || || || || || || |||||||| ||| Sbjct 49699430 AGGTCAAAATGC----AATTCTCTGTGAAGACCCTGACCGGCAAGACCATCACCCTGGAG 49699375 Query 177969 GTGGAAAGCTCAG--ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAA 178026 ||||| || ||| |||||||||||||||| || ||||| ||||| ||||| || | Sbjct 49699374 GTGGA--GCCCAGTGACACCATCGAGAACGTGAAGGCCAAGATCCAGGATAAAGAGGGCA 49699317 Query 178027 TCCCTCCGGACCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTC 178086 |||| || |||||||| | || ||||| ||||| || ||||| |||||||| | || | Sbjct 49699316 TCCCCCCTGACCAGCAGAGGCTCATCTTTGCCGGCAAGCAGCTGGAAGATGGCCGCACCC 49699257 Query 178087 TTGCCGATTATAACGTCCAAAAAGAATCAACACTGCATCTTGT 178129 | | ||||| ||| |||| ||||| ||||| ||||| || || Sbjct 49699256 TCTCTGATTACAACATCCAGAAAGAGTCAACCCTGCACCTGGT 49699214 Score = 145 bits (160), Expect = 2e-29 Identities = 158/208 (76%), Gaps = 4/208 (2%) Strand=Plus/Plus Query 177924 CAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACCCTCGAGGTGGAAAGCTCAG-- 177981 || || |||||||| || || || || || || |||||||| |||||||| || ||| Sbjct 48881289 CAGATCTTCGTGAAGACCCTGACCGGCAAGACCATCACCCTAGAGGTGGA--GCCCAGTG 48881346 Query 177982 ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGACCAGC 178041 |||||||||||||||| || ||||| ||||| ||||| || ||||| || ||||||| Sbjct 48881347 ACACCATCGAGAACGTGAAGGCCAAGATCCAGGATAAAGAGGGCATCCCCCCTGACCAGC 48881406 Query 178042 AACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTATAACG 178101 | | || ||||| ||||| || ||||| |||||||| | || || | || || ||| Sbjct 48881407 AGAGGCTCATCTTTGCCGGCAAGCAGCTGGAAGATGGCCGCACCCTCTCTGACTACAACA 48881466 Query 178102 TCCAAAAAGAATCAACACTGCATCTTGT 178129 |||| || || ||||| ||||| || || Sbjct 48881467 TCCAGAAGGAGTCAACCCTGCACCTGGT 48881494 Score = 125 bits (138), Expect = 2e-23 Identities = 170/229 (74%), Gaps = 10/229 (4%) Strand=Plus/Plus Query 177903 TAAAGTAAGGTTAAAATGCTCCAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACC 177962 |||| | | || ||||||| |||| |||||||| || || || || || || |||||| Sbjct 48880823 TAAATTCAAGTCAAAATGC---AAATCTTCGTGAAGACCCTGACGGGCAAGACCATCACC 48880879 Query 177963 CTCGAGGTGGAAAGCTCAG--ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAG 178020 || ||||||| | ||| |||||||||||||||| || | |||| || ||| ||| Sbjct 48880880 CTAGAGGTGGGCCCC-CAGTGACACCATCGAGAACGTGAAGC-CAAGA-TCCGGATTAAG 48880936 Query 178021 AAGGAATCCCTCCGGACCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAA 178080 | || ||||| || |||||||| | || ||||| | ||| || ||||| |||||||| Sbjct 48880937 AGGGCATCCC-CCTGACCAGCAGAGGCTCATCTTTG-CGGCAAGCAGCTGGAAGATGGCC 48880994 Query 178081 GGACTCTTGCCGATTATAACGTCCAAAAAGAATCAACACTGCATCTTGT 178129 | || || | || || ||| |||| ||||| ||||| ||||| || || Sbjct 48880995 GCACCCTCTCTGACTACAACATCCAGAAAGAGTCAACCCTGCACCTGGT 48881043 >seq232 Length=115493446 Score = 132 bits (146), Expect = 1e-25 Identities = 164/222 (74%), Gaps = 7/222 (3%) Strand=Plus/Plus Query 177910 AGGTTAAAATGCTCCAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACCCTCGAGG 177969 |||| ||||||| |||| |||||||| || || || || || || |||||||| |||| Sbjct 36865802 AGGTCAAAATGC---AAATCTTCGTGAAGACCCTGACCGGCAAGACCATCACCCTAGAGG 36865858 Query 177970 TGGAAAGCTCAG--ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAAT 178027 |||| || ||| ||||||||||||| || || ||||| ||||| || || | || Sbjct 36865859 TGGA--GCCCAGTGACACCATCGAGAATGTGAAGGCCAAGATCCAGGATAAGGAGAGCAT 36865916 Query 178028 CCCTCCGGACCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCT 178087 ||| || |||||||| | || || || ||||| || ||||| |||||||| | || || Sbjct 36865917 CCCCCCTGACCAGCAGAGGCTCATTTTTGCCGGCAAGCAGCTGGAAGATGGCCGCACCCT 36865976 Query 178088 TGCCGATTATAACGTCCAAAAAGAATCAACACTGCATCTTGT 178129 | ||||| | | |||| | || ||||| ||||| || || Sbjct 36865977 CTCTGATTACAGCATCCAGGAGGAGTCAACCCTGCACCTGGT 36866018 >seq312 Length=159970021 Score = 123 bits (136), Expect = 6e-23 Identities = 154/208 (74%), Gaps = 5/208 (2%) Strand=Plus/Minus Query 177924 CAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACCCTCGAGGTGGAAAGCTCA--G 177981 || || ||| |||| || || || | || | |||||||| |||||||| || || | Sbjct 54029042 CAGATCTTCTTGAAGACCCTGACCAGCAAGATCATCACCCTGGAGGTGGA--GCCCAATG 54028985 Query 177982 ACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGACCAGC 178041 |||||||||||||| | || ||||| ||||| ||||| || ||||| || ||||||| Sbjct 54028984 ACACCATCGAGAACATGAATGCCAAGATCCAGGATAAAGAGGGTATCCC-CCTGACCAGC 54028926 Query 178042 AACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTATAACG 178101 | | || ||||| || || || ||||| |||||||| || || | ||||| ||| Sbjct 54028925 AGAGGCTCATCTTTGCAGGCAAGCAGCTGGAAGATGGCCACACCCTCTCTGATTACAACA 54028866 Query 178102 TCCAAAAAGAATCAACACTGCATCTTGT 178129 |||| ||||| ||||| ||||| || || Sbjct 54028865 TCCAGAAAGAGTCAACCCTGCACCTGGT 54028838 >seq297 Length=62275575 Score = 107 bits (118), Expect = 5e-18 Identities = 150/207 (72%), Gaps = 4/207 (2%) Strand=Plus/Minus Query 177924 CAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCACCCTCGAGGTGGAAAGCTCAGAC 177983 || || |||||||| || || | || || || ||||| || ||||| || | ||| Sbjct 30820137 CAGATCTTCGTGAAGACCCTGATGGGCAAGACCATCACTCTTGAGGTCGA--GTCCAGTG 30820080 Query 177984 ACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGACCAGCAA 178043 ||||||||||| ||||| ||||| ||||||| |||| |||| || |||||||| Sbjct 30820079 ACCATCGAGAATGTCAAGGCCAAGATCCAGGACATGGAAGTCGTCCC-CCTGACCAGCAG 30820021 Query 178044 CGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTATAACGTC 178103 |||| ||||| ||||| |||||||| || ||||| | || || |||| || ||| | Sbjct 30820020 AGACTGATCTTTGCCGGCAAACAGCTGGAGGATGGCCGCACCCTGTCCGACTACAACACC 30819961 Query 178104 CAAAAAGAATCAACAC-TGCATCTTGT 178129 || | ||| || || | |||| || || Sbjct 30819960 CAGAGAGAGTCCACCCTTGCACCTGGT 30819934 >seq129 Length=145729302 Score = 102 bits (112), Expect = 2e-16 Identities = 157/222 (71%), Gaps = 13/222 (6%) Strand=Plus/Minus Query 177910 AGGTTAAAATGCTCCAAATTTTCGTGAAAACTCTCACAGGAAAAACGATCA----CCCTC 177965 |||| ||||||| |||| |||||||| || || || || || || |||| |||| Sbjct 132017581 AGGTCAAAATGC---AAATCTTCGTGAAGACCCTGACCGGCAAGACCATCAATCGCCCTA 132017525 Query 177966 GAGGTGGAAAGCTCAGACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGA 178025 || |||||| | || ||||||||||| || || ||||| ||||| ||||| || Sbjct 132017524 GAAGTGGAACCCAGCGA-ACCATCGAGAATGTGAAGGCCAAGATCCAGGATAAAGAGGGC 132017466 Query 178026 ATC-----CCTCCGGACCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAA 178080 ||| || || |||||||| | || ||||| ||| | || ||||| |||||||| Sbjct 132017465 ATCTCCCGCCCCCCGACCAGCAGAGGCTCATCTTTGCCCGCAAGCAGCTGGAAGATGGCC 132017406 Query 178081 GGACTCTTGCCGATTATAACGTCCAAAAAGAATCAACACTGC 178122 | || || | ||| | ||||| | || || ||||| |||| Sbjct 132017405 GCACCCTCTCTGATCACAACGTTCGGAAGGAGTCAACCCTGC 132017364 >seq154 Length=133307652 Score = 87.8 bits (96), Expect = 4e-12 Identities = 111/153 (73%), Gaps = 0/153 (0%) Strand=Plus/Minus Query 177981 GACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGACCAG 178040 |||| ||||||| ||||| ||||| || ||||| ||||||||||| || ||||| Sbjct 35423425 GACAAGATCGAGATTGTCAAGGCCAAGATCCAAGACAAGGAAGGAATCCCACCAGACCAA 35423366 Query 178041 CAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTATAAC 178100 || | || || |||||| | |||||||| || || || || ||| |||| || ||| Sbjct 35423365 CAGAGGCTGATATTCGCCAGCAAACAGCTAGAGGAAGGCCACACCCTTTCCGACTACAAC 35423306 Query 178101 GTCCAAAAAGAATCAACACTGCATCTTGTTTTG 178133 |||| ||||| || || ||| || || ||| Sbjct 35423305 ATCCAGAAAGAGTCTACCTGGCACCTAGTGTTG 35423273 >seq1 Length=282763074 Score = 86.0 bits (94), Expect = 2e-11 Identities = 115/160 (72%), Gaps = 4/160 (3%) Strand=Plus/Plus Query 177977 CTCAGACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGA 178036 ||||||||| | || || || || ||||| ||||| || ||||||||||| | || Sbjct 154824665 CTCAGACACTAAAGAAAATGTAAAGGCCAAGATCCAGGATAAGGAAGGAATCCCCTCTGA 154824724 Query 178037 CCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTA 178096 ||||| || | ||||| || || | ||||| |||||||| | | ||| || || Sbjct 154824725 TCAGCAGAGATTGATCTTTGCTGGTTAGCAGCTGGAAGATGGCTGTAGTCT----GACTA 154824780 Query 178097 TAACGTCCAAAAAGAATCAACACTGCATCTTGTTTTGAGA 178136 ||| | ||||| || || || || |||||||| |||||| Sbjct 154824781 CAACATTCAAAAGGAGTCTACCCTTCATCTTGTGTTGAGA 154824820 Score = 86.0 bits (94), Expect = 2e-11 Identities = 115/160 (72%), Gaps = 4/160 (3%) Strand=Plus/Plus Query 177977 CTCAGACACCATCGAGAACGTCAAACAAAAGATTCAGGACAAAGAAGGAATCCCTCCGGA 178036 ||||||||| | || || || || ||||| ||||| || ||||||||||| | || Sbjct 154914769 CTCAGACACTAAAGAAAATGTAAAGGCCAAGATCCAGGATAAGGAAGGAATCCCCTCTGA 154914828 Query 178037 CCAGCAACGACTTATCTTCGCCGGAAAACAGCTCGAAGATGGAAGGACTCTTGCCGATTA 178096 ||||| || | ||||| || || | ||||| |||||||| | | ||| || || Sbjct 154914829 TCAGCAGAGATTGATCTTTGCTGGTTAGCAGCTGGAAGATGGCTGTAGTCT----GACTA 154914884 Query 178097 TAACGTCCAAAAAGAATCAACACTGCATCTTGTTTTGAGA 178136 ||| | ||||| || || || || |||||||| |||||| Sbjct 154914885 CAACATTCAAAAGGAGTCTACCCTTCATCTTGTGTTGAGA 154914924 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1203716471220270