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: Marmota_20marmota_20marmota_20[refseq_20GCF_5F001458135.1_202015-11- 20] 14,543 sequences; 2,510,587,379 total letters Query= NC_001348.1 Length=124884 Score E Sequences producing significant alignments: (Bits) Value seq13 127 2e-24 seq11 95.1 1e-14 seq78 91.5 1e-13 >seq13 Length=48154242 Score = 127 bits (140), Expect = 2e-24 Identities = 361/547 (66%), Gaps = 7/547 (1%) Strand=Plus/Minus Query 18815 CCAGT-GGAGACATTTTGGAGCGGAATATAAAGACTGTCAATCAAACTATTTACAGCAAG 18873 ||||| ||||||||||| | || ||| | ||||| | ||| | |||| | |||| Sbjct 3964179 CCAGTTGGAGACATTTTTGGGCAGAACACAAAGATATGGATTCAGATTATTCTGATCAAG 3964120 Query 18874 GAATCGATCAGCTGCAAACTGTTATAGATACAATTAAAACAAACCCAGAAAGCCGACGAA 18933 || | | || || |||| || || | || || ||||| ||||| ||| | || ||| Sbjct 3964119 GAGTAGGCCAACTTCAAAAAGTGATCAACACCATCAAAACCAACCCTGAAGACAGAAGAA 3964060 Query 18934 TGATTATATCGTCTTGGAATCCAAAGGATATCCCCTTAATGGTACTACCTCCATGTCACA 18993 | || || | |||||| ||||| ||| | || | ||||| || |||||||| || Sbjct 3964059 TCATCATGTGTGTTTGGAAACCAAAAGATTTTCCTCTGATGGTGCTGCCTCCATGCCATG 3964000 Query 18994 CGTTATGTCAGTTTTACGTTGCAAACGGTGAATTATCCTGCCAAGTATACCAGAGATCGG 19053 | || || ||||| ||| || || || || | ||||| | ||||| || || | Sbjct 3963999 CCTTCTGCCAGTTCTACAGTG--AATGGGGAGCTGTCCTGTTGGCTGTACCAAAGGTCAG 3963942 Query 19054 GGGATATGGGCCTTGGGGTACCGTTCAACATTGCTGGATATGCACTTCTTACC-TACATA 19112 | | |||||| | || || || |||||||| | | ||||| || |||||| ||||| Sbjct 3963941 GAGTCATGGGCTTGGGCGTGCCTTTCAACATCGAGTGCTATGCCCTGCTTACCTTACATG 3963882 Query 19113 GTAGCGCATGTTACAGGACTTAAAACCGGA-GATTTAATTCATACAATGGGGGATGCACA 19171 | | || | || |||| | | | || | || || ||| | | ||| ||||||| Sbjct 3963881 ATTACACACATCAC-GGACCTGCAGTCAGATAACTTTATGCATTC-TTTGGGAATGCACA 3963824 Query 19172 TATTTACTTGAATCATATAGATGCTTTAAAAGTGCAGCTAGCTCGATCCCCAAAACCTTT 19231 | ||||| ||||||| || || | | ||| | ||||| | | |||| | |||| Sbjct 3963823 TTTTTACCTGAATCACATTGAGCCACTGAAAATTCAGCTTCTACAAGAACCAAGAGCTTT 3963764 Query 19232 TCCTTGCCTTAAAATTATTCGAAATGTAACAGATATAAACGACTTTAAATGGGACGATTT 19291 || || ||||| ||| |||||| | || || |||| ||| || || || Sbjct 3963763 CCCAAAGCTCAAAATCCTTCAAAATGTTGAGAAAATTGACAACTTCAAACTTGAAGACTT 3963704 Query 19292 TCAGCTTGATGGATATAATCCACAccccccccTAAAAATGGAAATGGCTCTTTAATGGAT 19351 |||| |||| | || |||| ||| || | | ||| |||| |||| | |||| | Sbjct 3963703 TCAGATTGAAGAGTACAATCTACATCCAACTATTAAAGTGGAGATGGTTGTTTAGAGTGC 3963644 Query 19352 TTTTAAA 19358 ||||||| Sbjct 3963643 TTTTAAA 3963637 >seq11 Length=52463945 Score = 95.1 bits (104), Expect = 1e-14 Identities = 105/140 (75%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 18972 ATGGTACTACCTCCATGTCACACGTTATGTCAGTTTTACGTTGCAAACGGTGAATTATCC 19031 |||| ||| |||||||| || | | || ||||| ||||| | || || || | ||| Sbjct 43836348 ATGGCACTGCCTCCATGCCATGCCCTCTGCCAGTTCTACGTGGTGAATGGGGAGCTGTCC 43836407 Query 19032 TGCCAAGTATACCAGAGATCGGGGGATATGGGCCTTGGGGTACCGTTCAACATTGCTGGA 19091 ||||| | |||||||| || || || |||||||| || || || |||||||| || | Sbjct 43836408 TGCCAGCTGTACCAGAGGTCAGGTGACATGGGCCTGGGCGTGCCCTTCAACATCGCCAGC 43836467 Query 19092 TATGCACTTCTTACCTACAT 19111 ||||| || ||||||||||| Sbjct 43836468 TATGCCCTGCTTACCTACAT 43836487 >seq78 Length=8086754 Score = 91.5 bits (100), Expect = 1e-13 Identities = 502/794 (63%), Gaps = 22/794 (3%) Strand=Plus/Plus Query 18575 TTTATTTGGAATGCAAGCTCGATACAATTTGCGAAATGAATTTCCTCTTTTAACTACAAA 18634 ||| ||| | ||| || | | |||| || || ||||||| ||||| | || || || Sbjct 259529 TTTTTTTTGCATGAAATCATGCTACAGCCTGAGAGATGAATT-CCTCTGCTGACAACCAA 259587 Query 18635 GCGTGTTTTTTGGAGGGCCGTCGTGGAAGAGTTGTTATGGTTTATCCGCGGGTCAACCGA 18694 |||| || |||| | || |||| |||||| |||| |||||| || || || | Sbjct 259588 ATGTGTATTCTGGAATGGTGTTTTGGAGGAGTTGCTATGATTTATCAAGGGATCCACAAA 259647 Query 18695 TTCCAAAGAACTCGCCGCTAAAGATATACACATATGGGATATATACGGATCG--AGCAAA 18752 | | |||||||| | || | || |||| ||||| | | | ||| ||| Sbjct 259648 TGCTAAAGAACTATATTCCAAGGGACTAAACATCTGGGACACCAATGCATCTCAAGCCTT 259707 Query 18753 TTTCTAAA---TAGGAATGGCTTCCATAAAAGACACACGGGGGACCTTGGCCCCATTTAC 18809 || | | ||| | | ||| |||||| | ||||||| | ||| |||| Sbjct 259708 TTGGGATGGCCTGGGATTCTCCACCAGAAAAGAAA-----GGGACCTAGACCCAGTTTAT 259762 Query 18810 GGCTTCCAGTGGAGACATTTTGGAGCGGAATATAAAGACTGTCAATCAAACTATTTACAG 18869 |||||||||| |||||||||| | || | ||||| ||| |||| | Sbjct 259763 GGCTTCCAGTAGAGACATTTTTAGGTACAACACAAAGATATGGTTTCAGGTTATTCTGAT 259822 Query 18870 CAAGGAATCGATCAGCTGCAAACTGTTATAGATACAATTAAAACAAACCCAGAAAGCCGA 18929 |||||| | || ||||||| || || || || || ||||| || || || | || Sbjct 259823 CAAGGAGTAGA----CTGCAAAAAGTGATTGACACCATCAAAACCAATCCTGAGGCCAGA 259878 Query 18930 CGAATGATTATATCGTCTTGGAATCCAAAGGATATCCCCTTAATGGTA---CTACCTCCA 18986 |||| || || | || ||| ||||| ||| | || || | | || |||||| Sbjct 259879 AGAATTATCATGTGTGTTTAGAAACCAAAAGATTTTCCTCAAAAGATTTTCCTGCCTCCA 259938 Query 18987 TGTCACACGTTATGTCAGTTTTACGTTGCAAACGGTGAATTATCCTGCCAAGTATACCAG 19046 || || | | || ||||| ||| | || || || | |||||| | ||||| Sbjct 259939 TGCCATGCTCTCTGCCAGTTCTACAAGGTGAATGG-GAGCTGTCCTGCTGGCTGTACCAT 259997 Query 19047 AGATCGGGGGATATGGGCCTTGGGGTACCGTTCAACATTGCTGGATATGCACTTCTTACC 19106 ||||| || | |||||| | || | || |||| ||||| | ||||| || |||||| Sbjct 259998 AGATCAGGAGTCATGGGCTTGGGCATGCCTTTCAGCATTGAGAGCTATGCCCTGCTTACC 260057 Query 19107 T-ACATAGTAGCGCATGTTACAGGACTTAAAACCGGAG-ATTTAATTCATACAATGGGGG 19164 | | || || || | | | |||| | | || | | | || || ||| | || | | Sbjct 260058 TTATATGGTTGCATACATCAG-GGACCTGCAGCCAGTGGACTTTATGCATTCTTTGAGAG 260116 Query 19165 ATGCACATATTTACTTGAATCATATAGATGCTTTAAAAGTGCAGCTAGCTCGATCCCCAA 19224 ||||||||||||| | ||||| || || | | ||| | ||||| || |||| Sbjct 260117 ATGCACATATTTAACTAAATCACATTGAGCCACTGAAAATTCAGCTTCTATGAGAACCAA 260176 Query 19225 AACCTTTTCCTTGCCTTAAAATTATTCGAAATGTAACAGATATAAACGACTTTAAATGGG 19284 | |||| || || |||||| ||| ||| | | || || |||| ||| Sbjct 260177 GAGCTTTACCAAAGCTCAAAATTCTTCCAAAGATTGAGAAAATTGACAACTTCAAAGTTA 260236 Query 19285 ACGATTTTCAGCTTGATGGATATAATCCACAccccccccTAAAAATGGAAATGGCTCTTT 19344 | | |||||| |||| || || |||||||| | | | ||||| || |||||| ||| Sbjct 260237 AAAACTTTCAGATTGAAGGGTAAAATCCACATCTAACTATTAAAATAGAGATGGCTGTTT 260296 Query 19345 AATGGATTTTTAAA 19358 | | ||||||| Sbjct 260297 AGAGTGCTTTTAAA 260310 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 399433190787435