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_001510.1 Length=5149 Score E Sequences producing significant alignments: (Bits) Value seq97 399 7e-108 >seq97 Length=173707219 Score = 399 bits (442), Expect = 7e-108 Identities = 593/826 (72%), Gaps = 16/826 (2%) Strand=Plus/Plus Query 276 TACTCTGATGAAGTTTTGGGAGCAACCAACTGGTTAAAGGAAAAAAGTAACCAG-GAAGT 334 || |||||||| ||||||| || || |||||||| || || | ||| | |||| Sbjct 68316158 TATTCTGATGAGGTTTTGGATACAGTTAATTGGTTAAAAGACCAA-GCAACTACTGAAGC 68316216 Query 335 GTTCTCATTTGTTTTTAAAAATGAAAATGTTCAACTGAATGGAAAAGATATCGGATGGAA 394 ||||| ||||||||| ||| ||| || ||||| || |||||||||||||| | ||||| Sbjct 68316217 CTTCTCGTTTGTTTTTGAAACTGAGAACGTTCAGCTCAATGGAAAAGATATTGACTGGAA 68316276 Query 395 TAGTTACAAAAAAGAGCTGCAGGAGGACGAGCTGAAATCTTTACAACGAGGAGCGGAAAC 454 ||||| || | | | | || || |||| || | ||||| | ||||| Sbjct 68316277 AGACTACAACAAGAAAATAGACAACGAGGAACTGACTTCACTGTTGCGAGGCACTGAAAC 68316336 Query 455 TACTTGGGACCAAAGCGAGGACATGGAATGGGAA-ACCACAGTGGATGAAATGACCAAAA 513 | | |||| ||| ||| ||||||||||||| | | || | ||||| | | ||||||| Sbjct 68316337 TGCGAGGGATCAAGCCGAAGACATGGAATGGGGAGATCA-ACTGGATACACTCACCAAAA 68316395 Query 514 AGCAAGTATTCATTTTTGATTCTTTGGTTAAAAAATGTTTATTTGAAGT---GCTTAACA 570 |||||| | || |||| || | ||||||||||| | |||||||| ||| |||| Sbjct 68316396 GGCAAGTCTGCAGCCATGATGCTGTTATTAAAAAATGTCTTTTTGAAGTAGTGCTGAACA 68316455 Query 571 CAAAGAATATATTTCCTGGTG-ATGTTAATTGGTTTGTGCAACATGAATGGGGAAAAGAC 629 ||| | || || | ||||| || ||| | |||| ||| | |||||||| Sbjct 68316456 AAAA---TGTAGAGCCAAAAGCATGTTTAT-GGTACATTCAACTTGAGTATGGAAAAGAT 68316511 Query 630 CAAGGCTGGCACTGCCATGTACTAATTGGAGG-AAAGGACTTTAGTCAAGCTCAAGGGAA 688 ||| ||||||||||||||||| | || |||||||| || | ||| ||||| || Sbjct 68316512 CAAAAATGGCACTGCCATGTACTGCTGACCGGCAAAGGACTCCAG-CGAGCACAAGGCAA 68316570 Query 689 ATGGTGGAGAAGGCAACTAAATGTTTACTGGAGCAGATGGTTGGTAACAGCCTGTAATGT 748 | ||| | || || ||||||||| |||||||||||||| || || ||| ||| Sbjct 68316571 AGGGTTCCGCAGACAGCTAAATGTTCTTTGGAGCAGATGGTTAGTTACTATGTGTTCTGT 68316630 Query 749 GCAACTAACACCAGCTGAAAGAATTAAACTAAGAGAAATAGCAGAAGACAATGAGTGGGT 808 ||||| ||||||||||| |||| ||||| | ||||| || |||||| ||| ||||| Sbjct 68316631 ACAACTTTCACCAGCTGAACGAATCAAACTGCGTGAAATTGCCGAAGACTCTGAATGGGT 68316690 Query 809 TACTCTACTTACTTATAAGCATAAGCAAACCAAAAAAGACTATACCAAGTGTGTTCTTTT 868 | || || || |||| || ||||||||||||||||||||||| || |||| || Sbjct 68316691 CTCGCTGCTAACCTATACTCACAAGCAAACCAAAAAAGACTATACAAAAATGGTTCACTT 68316750 Query 869 TGGAAACATGATTGCTTACTATTTTTTAACTAAAAAGAAAATAAGCACTAGTCCACCAAG 928 |||||| ||| ||||||| ||||||||||| ||||||||| || || || ||| || Sbjct 68316751 TGGAAATATGGTTGCTTATTATTTTTTAACCAAAAAGAAACTATGCTCTGAACCAAATAG 68316810 Query 929 -AGACGGAGGCTATTTTCTTAGCAGTGACTCTGGCTGGAAAACTAACTTTTTAAAAGAAG 987 ||| |||||| | | |||| || ||| ||||||||||||| ||| | ||||||| Sbjct 68316811 CAGA-TCAGGCTACTATACTAGCTCCGATTCTAGCTGGAAAACTAATTTTATGAAAGAAG 68316869 Query 988 GCGAGCGCCATCTAGTGAGCAAACTATACACTGATGACATGCGGCCAGAAACGGTTGAAA 1047 || || ||| | || ||| ||| || ||||| | ||| ||||||||||| || | Sbjct 68316870 CAGACCGTCATTTGGTCAGCTCACTTTATACTGAGCAAATGAAACCAGAAACGGTCGAGA 68316929 Query 1048 CCACAGTAACCACTGCGCAGGAAACTAAGCGCGGCAGAATTCAAAC 1093 ||||||||||||| || || || |||||||| |||||||||| Sbjct 68316930 CCACAGTAACCACAGCCCAAGAGCAAAAGCGCGGGCGAATTCAAAC 68316975 Score = 385 bits (426), Expect = 2e-103 Identities = 357/454 (79%), Gaps = 8/454 (2%) Strand=Plus/Minus Query 2152 CTGGTTCCAAAGCCTGCCAAGATGGTCAACTGAGCCCAACTTGGTCAGAGATCGAGGAGG 2211 ||||||| | | || ||| || ||| ||||||||||||||| || ||||| ||| Sbjct 68319808 CTGGTTCAAGCGGCTCGCAACCTGTGCAAGCGAGCCCAACTTGGTCCGAAATCGAACAGG 68319749 Query 2212 ATTTGAGAGCGTGCTTCGGTGCGGAACCGTTGAAGAAAGACTTCAGCGAGCCGCTGAACT 2271 | ||||||| |||||| || |||| ||| |||||||||||| |||| ||| | || Sbjct 68319748 ACCTGAGAGCCTGCTTCAGTCAAGAACAATTGGAGAAAGACTTCAACGAGGAGCTAACCT 68319689 Query 2272 TGGACTAAGGTACGATGGCGCCTCCAGCTAAAAGNNNNNNNNNNNNNNNGGGTTTAAGGG 2331 ||||||||||||||||||| ||||| || ||||| ||| ||| Sbjct 68319688 TGGACTAAGGTACGATGGCACCTCCGGCGAAAAGAGCCAGGAGAGGTAAGGG----AGGC 68319633 Query 2332 ATGGTTGGT-TGG-TGGGGTATTAATGTTTAATTACCTGTTTTACAGGCCTGAAATCACT 2389 ||||||||| ||| | |||| || | | ||| | | ||||||| | || ||| Sbjct 68319632 ATGGTTGGTGTGGATTGGGT--TACTTACCAGCTACATATGTTACAGGTACAATATTACT 68319575 Query 2390 TGGTTTTAGGTTGGGTGCCTCCTGGCTACAAGTACCTGGGACCAGGGAACAGCCTTGACC 2449 |||||||||||||||||||||| ||||||||||||||||||||||||||||||||| ||| Sbjct 68319574 TGGTTTTAGGTTGGGTGCCTCCGGGCTACAAGTACCTGGGACCAGGGAACAGCCTTAACC 68319515 Query 2450 AAGGAGAACCAACCAATCCATCTGACGCCGCTGCCAAAGAGCACGACGAGGCCTATGATC 2509 |||||||||||||||| || |||||||| || ||||||||||||||||| || || || | Sbjct 68319514 AAGGAGAACCAACCAACCCTTCTGACGCTGCGGCCAAAGAGCACGACGAAGCATACGACC 68319455 Query 2510 AATACATCAAATCTGGAAAAAATCCTTACCTGTACTTCTCTGCTGCTGATCAACGCTTTA 2569 ||||||| |||||||| | |||||||||||| ||||| || |||||||||||||||||| Sbjct 68319454 AATACATTAAATCTGGTAGAAATCCTTACCTTTACTTTTCACCTGCTGATCAACGCTTTA 68319395 Query 2570 TTGACCAAACCAAGGACGCCAAAGACTGGGGAGG 2603 ||||| |||| |||||||||||||||||||| Sbjct 68319394 TTGACAAAACAGCTGACGCCAAAGACTGGGGAGG 68319361 Score = 167 bits (184), Expect = 8e-38 Identities = 238/327 (73%), Gaps = 6/327 (2%) Strand=Plus/Minus Query 4104 TAAAAATGACATTCATTTTTCAAATGTTTTTAACAGCTATGGTCCACTAACTGCATTTTC 4163 ||||| ||| |||||||||| ||| | |||| |||||| || || ||||| | | Sbjct 68317829 TAAAAGTGATATTCATTTTTATAATACATACAACACCTATGGACCTCTTACTGC-TCTGA 68317771 Query 4164 ACACC-CAAGTCCTGTATACCCTCAAGGACAAATATGGGACAAAGAACTAGATCTTGAAC 4222 ||| | | ||| | | ||| | || ||||| |||||||||||||| ||| ||| Sbjct 68317770 ACAACACGCCTCCAATTTGTCCTAATGGTCAAATTTGGGACAAAGAACTGGATTGTGACT 68317711 Query 4223 ACAAACCTAGACTTCACATAACTGCTCCATTTGTTTGTAAAAACAATGCACCTGGACAAA 4282 ||||| ||||| ||||| | |||||||||||||||||||||||| ||||| || Sbjct 68317710 TAAAACCCAGACTGCACATTAATGCTCCATTTGTTTGTAAAAACAACTGTCCTGGGCAGC 68317651 Query 4283 TGTTGGTTAGATTAGGACCAAACCTAACTGACCAATATGATCCAAACGGA-GCCACACTT 4341 | ||||||| | ||| ||||||||| ||||||||||||||||| ||| | || || | Sbjct 68317650 TATTGGTTAAAGTAGCACCAAACCTTACTGACCAATATGATCCCAACACACTGCAGAC-T 68317592 Query 4342 TCTAGAATTGTTACATACGGTACATTTTTCTGGAAAGGAAAACTAACCATGAGAGCAAAA 4401 || |||| ||||| ||| | |||| |||||||| || ||| | | ||| ||| Sbjct 68317591 CCTCGAATCGTTACCTACTCTGATTTTTGGTGGAAAGGCAAGCTAGTATTCACAGCCAAA 68317532 Query 4402 CTTAGAGCT-AACACCACTTGGAACCC 4427 || || ||| ||| || |||||||| Sbjct 68317531 CTCAGGGCTCCACA-TACATGGAACCC 68317506 Score = 136 bits (150), Expect = 1e-28 Identities = 350/530 (66%), Gaps = 10/530 (2%) Strand=Plus/Minus Query 2912 TTGGTGTTTCTACTGGGTCTTATGATAATCAAACGCATTATAGATTCTTGGGTGACGGCT 2971 ||||| ||||||| ||| ||| |||||||||| | | | ||| |||| || || Sbjct 68319026 TTGGTATTTCTACAGGGACTTTCAATAATCAAACAGAATTTGAATTTTTGGAGGAGGGGA 68318967 Query 2972 GGGTAGAAATTACTGCACTAGCAACTAGACTAGTACATTTAAACATGCCTAAATCAGAAA 3031 ||| || || || | || | ||||| || |||||||| ||||| | | || Sbjct 68318966 TGGTTCGGATCACGGCGCATGCCAGCAGACTTGTGCATTTAAATATGCCAGACACTGAGT 68318907 Query 3032 ACTATTGCAGAATCAGAGTTCACAATACAACAGACACATCAGTCAAAGGCAACATGGCAA 3091 || | ||| | | || || ||| | || |||| || || || || || ||||| Sbjct 68318906 CTTACAGAAGAGTTATGGTACATAATTCTACTAACACTTCTGTAAAGGGAAATATGGCTT 68318847 Query 3092 AAGATGATGCTCATGAGCAAATTTGGACACCATGGAGCTTGGTGGATGCTAATGCTTGGG 3151 ||||| || || || || ||| |||||| |||| ||||| |||||||||| Sbjct 68318846 TGGATGACGCGCACACACAGATCGTGACCCCATGGTCACTGGTTGATGCAAATGCTTGGG 68318787 Query 3152 GAGTTTGGCTCCAGCCAAGTGACTGGCAATACATTTGCAACACCATGAGCCAGCTTAACT 3211 |||| ||| | | || | |||||||| || || | ||||| | | |||| | Sbjct 68318786 GAGTCTGGTTTAACCCCGGAGACTGGCAGATGATCGTTAATAACATGACCGAACTTAGTT 68318727 Query 3212 TGGTATCACTTGATCAAGAAATATTCAATGTAGTGCTGAAAACTGTTACAGAGCAAGACT 3271 |||| |||| |||||||| || ||||| ||||| ||||| || || || | | Sbjct 68318726 TGGTCAGTTTTGAGCAAGAAATCTT-AATGTGGTGCTCAAAACAGTCACTGAAACTGCCA 68318668 Query 3272 TAGGAGGTCAAGCTATAAAAATATACAACAATGACCTTACAGCTTGCATGATGGTTGCAG 3331 | | | |||| | || |||| ||||| ||||| |||||| | | ||||| || Sbjct 68318667 CAACA---CCAGCTGTTAAGGTATATAACAACGACCTGACAGCTAGTCTAATGGTGGCGT 68318611 Query 3332 TAGACTCAAACAACATTTTGCCATACACACCTGCAGC---AAACTCAATGGAAACACTTG 3388 | ||||| || || | ||| ||||| || || || || | ||| |||||| | | Sbjct 68318610 TGGACTCTAATAATACTTTACCATATACTCCAGCCGCCATGAGGTCA---GAAACATTGG 68318554 Query 3389 GTTTCTACCCCTGGAAACCAACCATAGCATCACCATACAGGTACTATTTT 3438 | ||||| || |||| |||||||| | || | |||| || || || ||| Sbjct 68318553 GCTTCTATCCATGGATACCAACCACACCAACTCCATGGAGATATTACTTT 68318504 Score = 109 bits (120), Expect = 2e-20 Identities = 94/113 (83%), Gaps = 4/113 (4%) Strand=Plus/Minus Query 4916 ACTGTCTATTCAGT-GAACCAACTGAACCATTAGTATTACTATGTTTTTAGGGTGGGAGG 4974 ||||| ||||| || |||||||| ||||||| ||||| ||||| ||||||||||| || Sbjct 68317094 ACTGTTTATTCGGTTGAACCAACCGAACCATCAGTATCTATATGTCTTTAGGGTGGG-GG 68317036 Query 4975 GTGGGAGATACATGTGTTCGCTATGAGCGAACTGGTACTGGTTGGT--TGCTC 5025 ||||||||||||| ||||||||||| | | ||||| |||||||| ||||| Sbjct 68317035 GTGGGAGATACATATGTTCGCTATGGACAACTTGGTATTGGTTGGTCATGCTC 68316983 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 16364629064550