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: Ochotona_20princeps_20[refseq_20GCF_5F000292845.1_202012-08-27] 10,421 sequences; 2,229,840,584 total letters Query= NC_004105.1 Length=209771 Score E Sequences producing significant alignments: (Bits) Value seq9 116 5e-21 seq40 113 6e-20 seq14 86.0 8e-12 >seq9 Length=49469770 Score = 116 bits (128), Expect = 5e-21 Identities = 97/119 (82%), Gaps = 0/119 (0%) Strand=Plus/Plus Query 42089 TCATCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGCATTAGGCCACGCTTTTTA 42148 |||||||| || || | ||| |||||||| |||||||| ||||| || || | ||| || Sbjct 15784990 TCATCTCTGCTGATGAGTTCATTGGAAAAAGTGAGTCCAGGCATCAGACCTCTCTTCTTC 15785049 Query 42149 AGCCAAAATATAGACGCAAATGATCCAGAAAAGAAGATTCCTTCTACTGCCGCAAAGGC 42207 ||||| ||||||| ||||| ||||| || ||||| ||||||||||| || |||||||| Sbjct 15785050 AGCCAGAATATAGCAGCAAAAGATCCCGAGAAGAAAATTCCTTCTACAGCAGCAAAGGC 15785108 >seq40 Length=19049039 Score = 113 bits (124), Expect = 6e-20 Identities = 141/191 (74%), Gaps = 2/191 (1%) Strand=Plus/Minus Query 71381 CATATGTATCGTATGGTCCTT-CTTTTTCGGCTAGTTCACAACTCGCCTCTAATGCTCCA 71439 |||| || || ||||| || | || |||| | || |||||||| || || || |||||| Sbjct 15947555 CATACGTTTCATATGGGCCATGCTCCTTCGCC-AGGTCACAACTAGCTTCCAAAGCTCCA 15947497 Query 71440 TAATAAATGGTTTCGAAAATCTTCTTATTGAGATCTTGTGCTTCCGGGCTATCAAATGGA 71499 |||||||| ||||| ||||||| |||||| || ||||| || || || ||||| ||| Sbjct 15947496 TAATAAATAGTTTCAAAAATCTGCTTATTCAGTAACTGTGCCTCTGGACTCTCAAAAGGA 15947437 Query 71500 TAATTTAAGAGAATAAACGCGTCTGCTAATCCTTGAACGCCAATACCGATAGGTCTGTGT 71559 || | | |||||||| || ||||| | ||||| || ||||| || || || | || Sbjct 15947436 TATCTCATCAGAATAAAAGCATCTGCCAGACCTTGTACCCCAATTCCAATGGGACGATGG 15947377 Query 71560 CTCTTATTAGA 71570 | ||||| || Sbjct 15947376 CGTTTATTTGA 15947366 Score = 105 bits (116), Expect = 9e-18 Identities = 105/136 (77%), Gaps = 0/136 (0%) Strand=Plus/Minus Query 71143 ACTTGAAATTCTCCAGACAATACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACT 71202 || ||||||||||| ||||| ||||| ||||| || || || ||||| || ||||| | Sbjct 15950533 ACCTGAAATTCTCCTGACAAGACTCTGCGAGTATAGATGTTGCTGGTGTAAGGTTCAATC 15950474 Query 71203 GACTCATTATTTCCCAAAATTTGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGA 71262 ||||||||||| |||| || |||||||| || || |||||||| || || | | | | Sbjct 15950473 GACTCATTATTCCCCAGGATCTGAGCAGTGGAGGCGGTCGGCATTGGGGCAATAAGCAAA 15950414 Query 71263 CTATTTCTAAGACCAT 71278 || ||||| | ||||| Sbjct 15950413 CTGTTTCTTATACCAT 15950398 Score = 102 bits (112), Expect = 1e-16 Identities = 121/164 (74%), Gaps = 0/164 (0%) Strand=Plus/Minus Query 72763 CTAAATAGtttttttGTTTCCTTGTGTAGATTTGATACGGCTATTCTGGCGGCTAGAATG 72822 || || | ||| |||||||| ||||| | || || || || || || || || || ||| Sbjct 15930971 CTGAACACTTTCTTTGTTTCTTTGTGCAAGTTGGAGACAGCAATCCTTGCTGCCAGGATG 15930912 Query 72823 GCATAATCTGGATGTTGTGTAGTACAAGTGGCTGCTATTTCTGCTGCCAGAGTGTCCAAT 72882 |||||||| || || | ||||| | || || || |||| || |||| || |||||| Sbjct 15930911 GCATAATCGGGGTGCTTCGTAGTCAAGGTTGCAGCAGTTTCAGCAGCCAACGTATCCAAT 15930852 Query 72883 TCTACCGTTGTTACTCCATTATATATTCCTTGGATAACCTTCAT 72926 ||||| || || |||||| | |||| |||||||| || ||||| Sbjct 15930851 TCTACTGTGGTGACTCCACTGTATAAGCCTTGGATTACTTTCAT 15930808 Score = 98.7 bits (108), Expect = 1e-15 Identities = 102/134 (76%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 72022 ACTCGTTTCATAAAGAGATCAGGAATCCAAAGAGCTATAAATAGATCTCTGGTTCTATGC 72081 ||||||||||| |||||||| ||||||||||| || | || ||||| || | | || Sbjct 15940735 ACTCGTTTCATGAAGAGATCTGGAATCCAAAGGGCAAAGAAAAGATCCCTTGCGCGCTGT 15940676 Query 72082 TCCTCGTTTCCTGTATTCTTTTTAAGATCGAGGAACGCCATAATATCAGAATGCCACGGT 72141 || || |||||||| ||||| || | ||| |||||| | | ||||| ||||||| || Sbjct 15940675 TCTTCCTTTCCTGTGTTCTTCTTTAAATCAAGGAACTCAAAGATATCTAAATGCCAAGGC 15940616 Query 72142 TCCAAGTATATGGC 72155 |||| ||| || || Sbjct 15940615 TCCAGGTAAATAGC 15940602 >seq14 Length=40210847 Score = 86.0 bits (94), Expect = 8e-12 Identities = 82/105 (78%), Gaps = 0/105 (0%) Strand=Plus/Minus Query 42326 TCTTTAACATATGTATCGATCAAAAGACTATACATTTCTGAATGAATGTTTTCAATGGCC 42385 || |||| || || ||||| | || || |||||||||||||| |||||||| ||||| Sbjct 6354256 TCCTTAATGTAAGTGTCGATAAGCAGGCTGTACATTTCTGAATGTATGTTTTCCATGGCA 6354197 Query 42386 ATCTGAAATCCGTAGAAACATCTGGCCTCGGTAACCTGTACTTCT 42430 || || || |||||||| || | ||| ||||| | ||| |||||| Sbjct 6354196 ATTTGGAAGCCGTAGAAGCAGCGGGCTTCGGTGATCTGAACTTCT 6354152 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 671051775729960