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_001539.1 Length=5323 Score E Sequences producing significant alignments: (Bits) Value seq97 625 1e-175 >seq97 Length=173707219 Score = 625 bits (692), Expect = 1e-175 Identities = 1094/1566 (70%), Gaps = 45/1566 (3%) Strand=Plus/Minus Query 2889 CTGGGGGTGTGGGGATTTCTACGGGTACTTTCAATAATCAGACGGAATTTAAATTTTTGG 2948 ||||||| || || |||||||| || |||||||||||||| || |||||| ||||||||| Sbjct 68319035 CTGGGGGGGTTGGTATTTCTACAGGGACTTTCAATAATCAAACAGAATTTGAATTTTTGG 68318976 Query 2949 AAAACGG-ATGGGTGGAAATCACAGCAAACTCAAGCAGACTTGTACATTTAAATATGCCA 3007 | | || |||| | | | |||| || | | ||||||||||| ||||||||||||||| Sbjct 68318975 AGGAGGGGATGGTTCGGA-TCACGGCGCATGCCAGCAGACTTGTGCATTTAAATATGCCA 68318917 Query 3008 GAAAGTGAAAATTATAGAAGAGTGGTTGTAAATAATATGGATAAAACTGCAGTTAACGGA 3067 || | ||| ||| |||||||| | ||| ||||| ||| ||| | || || ||| Sbjct 68318916 GACACTGAGTCTTACAGAAGAGTTATGGTACATAATTCTACTAACACTTCTGTAAAGGGA 68318857 Query 3068 AACATGGCTTTAGATGATATTCATGCACAAATTGTAACACCTTGGTCATTGGTTGATGCA 3127 || |||||||| ||||| || |||| || || || || |||||| ||||||||||| Sbjct 68318856 AATATGGCTTTGGATGACGCGCACACACAGATCGTGACCCCATGGTCACTGGTTGATGCA 68318797 Query 3128 AATGCTTGGGGAGTTTGGTTTAATCCAGGAGATTGGCAACTAATTGTTAATACTATGAGT 3187 |||||||||||||| |||||||| || ||||| ||||| | || ||||||| |||| Sbjct 68318796 AATGCTTGGGGAGTCTGGTTTAACCCCGGAGACTGGCAGATGATCGTTAATAACATGACC 68318737 Query 3188 GAGTTGCATTTAGTTAGTTTTGAACAAGAAATTTTTAATGTTGTTTTAAAGACTGTTTCA 3247 || | ||| || |||||||| ||||||| | ||||||| || | || || || | Sbjct 68318736 GAACTTAGTTTGGTCAGTTTTGAGCAAGAAA-TCTTAATGTGGTGCTCAAAACAGTCACT 68318678 Query 3248 GAATCTGCTACTCAGCCACCAACTAAAGTTTATAATAATGATTTAACTGCATCATTGATG 3307 ||| |||| || ||| | ||| || ||||| || || | || || | ||| Sbjct 68318677 GAAACTGCCACAACACCAGCTGTTAAGGTATATAACAACGACCTGACAGCTAGTCTAATG 68318618 Query 3308 GTTGCATTAGATAGTAATAATACTATGCCATTTACTCCAGCAGCTATGAGATCTGAGACA 3367 || || || || |||||||||| | |||| ||||||||| || ||||| || || ||| Sbjct 68318617 GTGGCGTTGGACTCTAATAATACTTTACCATATACTCCAGCCGCCATGAGGTCAGAAACA 68318558 Query 3368 TTGGGTTTTTATCCATGGAAACCAACCATACCAACTCCATGGAGATATTATTTTCAATGG 3427 ||||| || |||||||||| |||||||| ||||||||||||||||||||| ||| ||| Sbjct 68318557 TTGGGCTTCTATCCATGGATACCAACCACACCAACTCCATGGAGATATTACTTTACATGC 68318498 Query 3428 GATAGAACATTAATACCATCTCATACTGGAACTAGTGGCACACCAACAAATA-TATACCA 3486 |||| | | |||| | | ||||| | ||| || ||||| | | || | Sbjct 68318497 AGTAGACTTCTTACACCAACATACACTGGTCAAACTGGGACTTCAACAGACACGATTGC- 68318439 Query 3487 TGGTACAGATCCAGATGATGTTCAATTTTATACTATTGAAAATTCTGTGCCAGTACACTT 3546 | ||| || | | |||||| || |||||||| |||||||| | ||||| | ||||| Sbjct 68318438 TCTTACTGACCATGGTGATGTGCAGTTTTATACAGTTGAAAATGCAGTGCCTATTCACTT 68318379 Query 3547 ACTAAGAACAGGTGATGAATTTGCTACAGGAACAtttttttttGATTGTAAACCATGTAG 3606 || |||||||| |||||||| | ||||| ||||||||||||||||| |||||| | Sbjct 68318378 GCTTAGAACAGGAGATGAATTCTCCACAGGGACATTTTTTTTTGATTGCAAACCAGTTTC 68318319 Query 3607 ACTAACACATACATGGCAAACAAATAGAGCATTGGGCTTACCACCATTTCTAAATTCTTT 3666 | | ||||| || |||||||| |||||| || |||| || || || || || | | Sbjct 68318318 ATTGACACACACGTGGCAAACTAATAGATCACTGGGTTTGCCCCCTCACCTGAACACACT 68318259 Query 3667 GCCTCAATC-TGAAGGAGCTACTA--ACTTTGGTGATATAGGAGTTCAACAAGATAAAAG 3723 |||| | || ||||||| || | || || ||| | | | ||| | ||||| Sbjct 68318258 GCCT-AGTCAAGAAGGAG--ACCAGCACAAGGGCTCTATTGACATAGACCAACAAAAAAG 68318202 Query 3724 ACGTGGTGTAACTCAAATGGGAAATACAAACTATATTACTGAAGCTACTATTATGAGACC 3783 | |||| || || ||| ||| || |||||| |||| ||||| ||| ||||||| || Sbjct 68318201 ATGTGGCGTCACCCAACAGGGCAA---CAACTATGTTACAGAAGCAACTGTTATGAGGCC 68318145 Query 3784 AGCTGAGGTTGGTTATAGTGCACCATATTATTCTTTTGA---GGCGTCTACACAAGGG-C 3839 ||| |||||||||| || | || ||| | |||||| ||| | || ||| | Sbjct 68318144 CGCTCAGGTTGGTTACTGTACGCCCTATAACAGTTTTGAATGTGCGGC----CAGGGGTC 68318089 Query 3840 CATTTAAAACACCTATTG---CAGCAGGACgggggggAGCGCAAACATATGAAAATCAAG 3896 | |||||||| || |||| |||||| | ||||| || ||| |||| | |||| Sbjct 68318088 CTTTTAAAACTCCAATTGTTCCAGCAGTA---GGGGGCGCTGAAA---ATGACTACCAAG 68318035 Query 3897 CAGCAGATGGTGATCCAAGA-TA-TGCATTTGGTAGACAACATGGTCAAAAAACTACCAC 3954 |||| |||| ||| ||| || | || || | ||||||||| || |||||| Sbjct 68318034 AAGCAAATGGCTGTCCTAGACTATTTCA--AGGAAAACAACATGGGCAGTTAACTACAGA 68317977 Query 3955 AACAGGAGAAACACCTGAGAGATTTACATATATAGCACATCAAG--ATACAGGAAGATAT 4012 ||||| || ||| | | | |||||| || | || ||| |||| || ||| | Sbjct 68317976 CACAGGTGATGGTCCTCAAAAGTACACATAT-TATCCCA-AAAGCCATACTGGCAGAGCT 68317919 Query 4013 CCAGAAGGAGATTGGATTCAAAATATTAACTTTAACCTTC---CTGTAACGAATGATAAT 4069 || | | ||| | || | |||| | | | || | || | | Sbjct 68317918 CCTCATAGCATGTGGGTCCAGGCAGCTGACTTGGCCATACCAGCTACAGCGGCGGGCACC 68317859 Query 4070 GTATTGCTACCAACAGATCCAATTGGAGGTAAAACAGGAATTAACTATACTAATATATTT 4129 | |||| | | || || || |||||||| | ||| | | | ||||| || Sbjct 68317858 CTTTTGCCTGGAGAAAATTCAGTTCCAGGTAAAAGTGATATTCATTTTTATAATACATAC 68317799 Query 4130 AATACTTATGGTCCTTTAACTGCATTAAATAATGTACCACCAGTTTATCCAAATGGTCAA 4189 || || ||||| ||| | ||||| | || || || ||| ||| ||| ||||||||| Sbjct 68317798 AACACCTATGGACCTCTTACTGCTCTGAACAACACGCCTCCAATTTGTCCTAATGGTCAA 68317739 Query 4190 ATTTGGGATAAAGAATTTGATACTGACTTAAAACCAAGACTTCATGTAAATGCACCATTT 4249 |||||||| |||||| | ||| |||||||||||| ||||| || | ||||| |||||| Sbjct 68317738 ATTTGGGACAAAGAACTGGATTGTGACTTAAAACCCAGACTGCACATTAATGCTCCATTT 68317679 Query 4250 GTTTGTCAAAATAATTGTCCTGGTCAATTATTTGTAAAAGTTGCGCCTAATTTAACAAAT 4309 |||||| |||| || |||||||| || |||| || ||||| || || || | || | Sbjct 68317678 GTTTGTAAAAACAACTGTCCTGGGCAGCTATTGGTTAAAGTAGCACCAAACCTTACTGAC 68317619 Query 4310 GAATATGATCCTGATGCATCTGCTAATATGTCAAGAATTGTAACTTACTCAGATTTTTGG 4369 |||||||||| | || |||| | | | |||| || || ||||| ||||||||| Sbjct 68317618 CAATATGATCCCAACACA-CTGC--AGACTCCTCGAATCGTTACCTACTCTGATTTTTGG 68317562 Query 4370 TGGAAAGGTAAATTAGTATTTAAAGCTAAACTAAGAGCCTCTCATACTTGGAATCCAATT 4429 |||||||| || ||||||| | ||| ||||| || || | ||||| ||||| || ||| Sbjct 68317561 TGGAAAGGCAAGCTAGTATTCACAGCCAAACTCAGGGCTCCACATACATGGAACCCCATT 68317502 Query 4430 CAACAA 4435 | ||| Sbjct 68317501 AACCAA 68317496 Score = 399 bits (442), Expect = 7e-108 Identities = 592/828 (71%), Gaps = 17/828 (2%) Strand=Plus/Plus Query 287 TATACTGAGGAAGTTATGGAGGGAGTAAATTGGTTAAAGAAACATGCAGAAAATGAAGCA 346 ||| |||| || ||| |||| ||| ||||||||||| | || ||| | |||||| Sbjct 68316158 TATTCTGATGAGGTTTTGGATACAGTTAATTGGTTAAAAGACCAAGCAACTACTGAAGCC 68316217 Query 347 TTTTCGTTTGTTTTTAAATGTGACAACGTCCAACTAAATGGAAAGGATGTTCGCTGGAAC 406 || |||||||||||| || ||| ||||| || || |||||||| ||| || |||||| Sbjct 68316218 TTCTCGTTTGTTTTTGAAACTGAGAACGTTCAGCTCAATGGAAAAGATATTGACTGGAAA 68316277 Query 407 AACTATACCAAACCAATTCAAAATGAAGAACTAACATCTTTAATTAGAGGAGCACAAACA 466 |||| | ||| ||| | || || ||||| || || | | |||| | |||| Sbjct 68316278 GACTACAACAAGAAAATAGACAACGAGGAACTGACTTCACTGTTGCGAGGCACTGAAACT 68316337 Query 467 GCAATGGATCAAACCGAAGAAGAAGAAATGGACTGGGAATCGGAAGTTGATAGTCTCGCC 526 || | ||||||| ||||||| ||||| |||| | || | |||| ||| || Sbjct 68316338 GCGAGGGATCAAGCCGAAGAC------ATGGAATGGGGAGATCAACTGGATACACTCACC 68316391 Query 527 AAAAAGCAAGTACAAACTTTTGATGCATTAATTAAAAAATGTCTTTTTGAAGTCTTTGTT 586 |||| |||||| | |||||| | ||||||||||||||||||||||| | | Sbjct 68316392 AAAAGGCAAGTCTGCAGCCATGATGCTGTTATTAAAAAATGTCTTTTTGAAGTAGTGCTG 68316451 Query 587 TCTAAAAATATAGAACCAAATGAATGTGTTTGGTTTATTCAACATGAATGGGGAAAAGAT 646 |||||| |||| ||||| | |||| | |||| ||||||| ||| | ||||||||| Sbjct 68316452 AACAAAAATGTAGAGCCAAAAGCATGTTTATGGTACATTCAACTTGAGTATGGAAAAGAT 68316511 Query 647 CAAGGCTGGCATTGTCATGTTTTACTTCATAGTAA-GAACTTACAACAAGCAACTGGTAA 705 ||| ||||| || ||||| | || | || | ||| || | |||| || || Sbjct 68316512 CAAAAATGGCACTGCCATGTACTGCTGACCGGCAAAGGACTC-CAGCGAGCACAAGGCAA 68316570 Query 706 ATGGCTACGCAGACAAATGAATATGTATTGGAGTAGATGGTTGGTGACTCTTTGTTCGGT 765 | || | |||||||| | ||| | |||||| |||||||| || ||| | ||||| || Sbjct 68316571 AGGGTTCCGCAGACAGCTAAATGTTCTTTGGAGCAGATGGTTAGTTACTATGTGTTCTGT 68316630 Query 766 A-AACTTAACACCAACTGAAAAGATTAAGCTCAGAGAAATTGCAGAAGATAGTGAATGGG 824 | ||||| ||||| ||||| || || || | |||||||| ||||| |||||||| Sbjct 68316631 ACAACTTT-CACCAGCTGAACGAATCAAACTGCGTGAAATTGCCGAAGACTCTGAATGGG 68316689 Query 825 TGACTATATTAACATACAGACATAAGCAAACaaaaaaaGACTATGTTAAAATGGTTCATT 884 | | | |||| || | || |||||||| |||||||||||| ||||||||||| | Sbjct 68316690 TCTCGCTGCTAACCTATACTCACAAGCAAACCAAAAAAGACTATACAAAAATGGTTCACT 68316749 Query 885 TTGGAAATATGATAGCATATTACTTTTTAACAAAGaaaaaaaTTGTCCACATGA--CAAA 942 ||||||||||| | || ||||| |||||||| || ||| ||| | | | | ||| |||| Sbjct 68316750 TTGGAAATATGGTTGCTTATTATTTTTTAACCAA-AAAGAAACTATGCTC-TGAACCAAA 68316807 Query 943 -AGAAAGT--GGCTATTTTTTAAGTACTGATTCTGGTTGGAAATTTAACTTTATGAAGTA 999 || | | ||||| | | || | |||||| | |||||| ||| |||||||| | Sbjct 68316808 TAGCAGATCAGGCTACTATACTAGCTCCGATTCTAGCTGGAAAACTAATTTTATGAAAGA 68316867 Query 1000 TCAAGACAGACAAATTGTCAGCACACTTTACACTGAACAAATGAAACCAGAAACCGTTGA 1059 |||| | || | |||||| ||||||| ||||| ||||||||||||||||| || || Sbjct 68316868 AGCAGACCGTCATTTGGTCAGCTCACTTTATACTGAGCAAATGAAACCAGAAACGGTCGA 68316927 Query 1060 AACCACAGTGACGACAGCACAGGAAACAAAGCGCGGGAGAATTCAAAC 1107 |||||||| || ||||| || || |||||||||| |||||||||| Sbjct 68316928 GACCACAGTAACCACAGCCCAAGAGCAAAAGCGCGGGCGAATTCAAAC 68316975 Score = 259 bits (286), Expect = 2e-65 Identities = 356/497 (72%), Gaps = 33/497 (7%) Strand=Plus/Minus Query 2180 GTGCAAGCGAGTCCGACGTGGTCCGAAATAGAGGCAGACCTGAGAGCCATCTTTACTTCT 2239 ||||||||||| || || ||||||||||| || |||||||||||| ||| | | Sbjct 68319785 GTGCAAGCGAGCCCAACTTGGTCCGAAATCGAACAGGACCTGAGAGCCTGCTTCAGTCAA 68319726 Query 2240 GAACAATTGGAAGAAGATTTTCGAGACGA------CTTGGATTAAGGTACGATGGCACCT 2293 ||||||||||| |||| || || || |||||| |||||||||||||||||| Sbjct 68319725 GAACAATTGGAGAAAGACTTCAACGAGGAGCTAACCTTGGACTAAGGTACGATGGCACCT 68319666 Query 2294 CCGGCAAAGAGAGCCAGGAGAGGTAAGGGTGTGTTAGTAAAGTGGGGGGAGGGGAAAGAT 2353 ||||| || |||||||||||||||||||| | | | ||| || | ||| | Sbjct 68319665 CCGGCGAAAAGAGCCAGGAGAGGTAAGGGAG-----GCA---TGGTTGGTGTGGATTGGG 68319614 Query 2354 TTAATAACTTAACTAAGTATGT-----Gt----------ttttttATAGGACTTGTGCCT 2398 ||| | || | ||| ||||| || || || |||| |||||| Sbjct 68319613 TTACTTACC-AGCTACATATGTTACAGGTACAATATTACTTGGTTTTAGGTTGGGTGCCT 68319555 Query 2399 CCAGGTTATAAATATCTTGGGCCTGGGAACAGTCTTGACCAAGGAGAACCAACTAACCCT 2458 || || || || || || || || |||||||| ||| |||||||||||||||| |||||| Sbjct 68319554 CCGGGCTACAAGTACCTGGGACCAGGGAACAGCCTTAACCAAGGAGAACCAACCAACCCT 68319495 Query 2459 TCTGACGCCGCTGCAAAAGAACACGACGAAGCTTACGCTGCTTATCTTCGCTCTGGTAAA 2518 |||||||| || || ||||| ||||||||||| |||| || || ||||||| | Sbjct 68319494 TCTGACGCTGCGGCCAAAGAGCACGACGAAGCATACGACCAATACATTAAATCTGGTAGA 68319435 Query 2519 AACCCATACTTATATTTCTCGCCAGCAGATCAACGCTTTATAGATCAAACTAAGGACGCT 2578 || || ||| | || || || || || |||||||||||||| || |||| ||||| Sbjct 68319434 AATCCTTACCTTTACTTTTCACCTGCTGATCAACGCTTTATTGACAAAACAGCTGACGCC 68319375 Query 2579 AAAGATTggggggggAAAATAGGACATTAtttttttAGAGCTAAAAAGGCAATTGCTCCA 2638 ||||| ||||| || || ||||||||||| ||| | || |||||||||||||| ||| Sbjct 68319374 AAAGACTGGGGAGGACGCATCGGACATTATTTCTTTCGTGCAAAAAAGGCAATTGCACCA 68319315 Query 2639 ---GTATTAACTGATAC 2652 || ||||||||| Sbjct 68319314 ACTTTAAAAACTGATAC 68319298 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 16921423248600