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_024696.1 Length=180800 Score E Sequences producing significant alignments: (Bits) Value seq50 266 4e-66 seq3 206 3e-48 seq139 152 6e-32 seq8 113 5e-20 >seq50 Length=14117412 Score = 266 bits (294), Expect = 4e-66 Identities = 663/1002 (66%), Gaps = 11/1002 (1%) Strand=Plus/Minus Query 162059 CCAGGGACTTATGTCGGAGATACTCGTCTAGACACTGGACCGCGAACACGTCTCGTTCCT 162118 |||||| ||||| || || | ||| || || ||||||| || || | ||| ||| Sbjct 4069134 CCAGGGCTTTATGCCGCAGGTGCTCATCCAGGCACTGGATGGCAAAGAGGTCAACATCCG 4069075 Query 162119 CATCGAACTTGTTCGCGAACAGGTGATGCGAGTTCTTCAATATCCAATTAAGATCCCCCG 162178 || |||||||| || |||| ||| || ||| || |||||||| | || || | Sbjct 4069074 TGTCAAACTTGTTGGCAAACAAGTGGTGT---TTCCGCAGCATCCAATTCAAGTCGCCAG 4069018 Query 162179 ATCCGAACACGCACACGGACCGCACGTGCACGCCGCTGCACGGCGGATACAGGGCCCCAT 162238 |||||||||||||| || |||||||| || ||| ||| || || || | || || | Sbjct 4069017 CCCCGAACACGCACACAGAGCGCACGTGGACACCGTGGCAGGGTGGGTAGGGCGCGCCCT 4068958 Query 162239 CGTCCACATCCCCCTCGTAGTATTGCCACTTAACGAACCTAGTGATAGCCTGCATGTCGG 162298 | ||| || || || |||| |||||||| || ||||| | || ||||||||||| | Sbjct 4068957 TGGACACGTCACCTTCAAAGTACTGCCACTTGACAAACCTCGCGACCGCCTGCATGTCAG 4068898 Query 162299 AGGTGTCGTACTTGTACACTGACGGCACGGCTCCAGGAACACCCGGCAGTCTCTGTAGAG 162358 | ||||||||| | | ||| || | || || || | || | || || | | Sbjct 4068897 ACAAGTCGTACTTCTGACTTAACGATACAGAGCCTGGCACTTCTGGGATCCTTTGGATGG 4068838 Query 162359 TAGCCCACAGGTGTTCGTCTGGACTATACGTCTCCTTCGACCACTCCATGAACTCCCTGA 162418 | ||||| || | ||||| || || || || |||| || ||||||||| |||| ||| Sbjct 4068837 TGGCCCAGAGATACTCGTCCGGGCTGTAGGTGTCCTGCGCCCACTCCATAAACT-TCTGC 4068779 Query 162419 CCGTTTT-ATCGTATAGAATGTAAGAGACGTAGGACCTGGTCACAATAAAGTACGCGCTA 162477 ||||| || | || | |||| || || ||| | || | |||||| || || Sbjct 4068778 ATGTTTTCATTCTCCAGCACGTAACCCACATACTCCCTCCTGACCACAAAGTAGGCACTG 4068719 Query 162478 CCAGAAAACACGGGTATGCGTATAGGAGGGGGCTCTTTGTCTTGACCCGTGTTGACTACC 162537 || || || | || ||| | | ||||| |||| ||| | |||||||| | | | Sbjct 4068718 CCCGAGAAGAGAGGGATGGGGAGGGGAGGCTGCTCCTTGACCGTGCCCGTGTTTATAAGC 4068659 Query 162538 ATTCCCTCTACGACCACGTGTCTCTTCCTCCACCTGGCCATCTTACTGGTAGACGGGTGT 162597 | || | || | |||| ||| |||||||| | |||| ||| | | Sbjct 4068658 CTCCCGTTCACAATGGCGTGATGCTTTCTCCACCTTTCTTCCTTATTGGGCGGCATCCTC 4068599 Query 162598 TCGGTCTCTAGACTGTTACGACCCCCCAAGGCCTTCAGCTGACGCACCATCTCTAGATTG 162657 || || || || |||| ||| || | ||| |||| | || ||||| || ||| Sbjct 4068598 TCCGTTTCCAGGTTGTTCTCGCCCATTAACGACTTGAGCTTTCTGACTATCTCCAGGTTG 4068539 Query 162658 GTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATATTTCCACTTAACGCTGAGT 162717 || || | || || || | ||||| || || || | || ||||| | | || || Sbjct 4068538 GTTTTGATAGGGAAATCCATCCCGCAAAGGTTGATCAAGTACTTCCAGTCCGCACTCAGG 4068479 Query 162718 CCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCGACTCCACGACGCGTACACG 162777 || || || |||| | ||||| || || ||||||||||||||||| || || ||||| Sbjct 4068478 CCATAGAGGTCCTTCATGCAGTTGAGGTCTGCCTGGACGCGACTCCATGAGGCATACACC 4068419 Query 162778 ACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACACGAAACTATCCCCATCACG 162837 ||| |||||| | | |||| || ||||| || |||||| || | | ||| | || Sbjct 4068418 ACGGTCTCCAGCTGACTGGCCACGAAGACGTTCGTGAAACAGGACGCGAGGCCCCTGACC 4068359 Query 162838 GCCAGTGAGAACATCGGGTCCGCT---TTCCTATCTACGTGTACGCAGTATAGATTCTGA 162894 || | || | | ||| || ||||| || ||||| | |||||| | |||||| Sbjct 4068358 GC---AGCCAAGAAGGATTCCTCTGACTTCCTGTCGACGTGAATGCAGTAGAAGTTCTGA 4068302 Query 162895 GGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATCTTATGGTGTACCACGATA 162954 || ||||||||||||||| | || || | ||| || || || || || || |||| Sbjct 4068301 GGCATGTAGATGGCCCTCAGGAGCCTGTCCAGCATTTCGATTTTGTGATGAACGACGACG 4068242 Query 162955 GAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAGAGACCCTGTAAAGTACTTGCGG 163014 ||||| || ||||| ||||| |||||||| || || | | || | ||| ||||| Sbjct 4068241 GAATAAGCGATGGGAAACTCTGCCTCCTCTTTGCTAAGCGGCTGCGTGATGTATTTGCGT 4068182 Query 163015 TCCCTCACAAACGCCGCACAGTCCTCCGTCATGTTAACGTAG 163056 | | | || | || |||||| |||||||| | |||| Sbjct 4068181 CTCTTGATGAAAGACGTGCAGTCCCTGGTCATGTTGATGTAG 4068140 >seq3 Length=63406555 Score = 206 bits (228), Expect = 3e-48 Identities = 241/323 (75%), Gaps = 2/323 (1%) Strand=Plus/Plus Query 171771 CATAGAGTGTCAGACAGGTCTTACCCGATATTTTTCCGGACCCAAAAGTATTAAACAAAC 171830 ||||||| || || |||| | | || || || || || ||||||||||||||||| | || Sbjct 25948535 CATAGAGGGTGAGGCAGGACGTTCCTGAGATCTTCCCCGACCCAAAAGTATTAAAAAGAC 25948594 Query 171831 ACATAAAACAGCCTTCGTCCTCCACGGTGGTGTTCCAAAAAGTCAATGTAGAATTTCTG- 171889 |||| | || || || ||||||| ||| |||||||| || || ||| | | ||||| Sbjct 25948595 ACATGTAGCACCCCTCATCCTCCAGGGTCGTGTTCCAGAAGGT-GATGGTGGAGTTCTGC 25948653 Query 171890 AGTCCGAGTTGCGTAATGTTCACCCGGTCCTTGTACGGAGGCTGGACGACAACACCGTGA 171949 || || || ||||| ||||| | | |||| | || | ||||||||||||||| ||||| Sbjct 25948654 AGCCCCAGCTGCGTGATGTTTAACTTGTCCCTATAGGCAGGCTGGACGACAACCCCGTGG 25948713 Query 171950 TTCTCGCTGAACGTGGCCATGTTTTCGGGGCTCGTAGCCTTTATCTTCTGCCACGTTACT 172009 |||| |||||| || |||| ||||| |||||| |||||| | |||||||| || || Sbjct 25948714 TTCTTGCTGAAGGTCACCATATTTTCTGGGCTCACAGCCTTCTTTTTCTGCCATGTCACA 25948773 Query 172010 ATTAAAACTTCTTTGTCGGTTTGAAGAGAGCATCTTAAAGAAGCAGGTGTGTTCAATAAT 172069 | || || || | | | || ||||||||| ||||||||||||||||||||| | Sbjct 25948774 ACCAAGACCTCCTGGGAAGACTGTAGAGAGCATTTTAAAGAAGCAGGTGTGTTCAGTTGC 25948833 Query 172070 TCCCTTTCGTCTTGCGTTACCAC 172092 | | |||| || || || | ||| Sbjct 25948834 TGCTTTTCATCCTGGGTCAACAC 25948856 Score = 104 bits (114), Expect = 3e-17 Identities = 151/213 (71%), Gaps = 3/213 (1%) Strand=Plus/Plus Query 171547 GCATATCACCTCCTCGTTTCCCACTTGACTTTTAGGATCTTTTACTTGAAGAATGCTAGT 171606 ||| |||||||||| | ||||| ||| | || || ||||| || || || | || || Sbjct 25946215 GCAGATCACCTCCT---TCCCCACCTGAGTCTTGGGGTCTTTGACATGGAGGACACTGGT 25946271 Query 171607 AACAGATGTAGTCCCGTTACGATGTAGAACGGTTTTAGTACTATTTTCTATTCCGGATCC 171666 ||||| || ||||| || ||||| | | | |||||| || || || || || || Sbjct 25946272 GACAGACGTGGTCCCATTGGGATGTGATAGACTCTCAGTACTGTTCTCAATCCCTGACCC 25946331 Query 171667 GGCAACTTTCCAAAATATAACAGGAGCTGGTCTAGCAGTAGCAGAGCAAGTTATGTTTAA 171726 ||||| ||||| | || ||||| ||||| | |||||| ||||||||||| || |||| Sbjct 25946332 AGCAACCTTCCAGGAGATCACAGGGGCTGGGCGAGCAGTGGCAGAGCAAGTGATATTTAG 25946391 Query 171727 TCCATCTTCGAAGAACTCATAGTGTAATGACAC 171759 ||||| ||||| | || || | ||||| Sbjct 25946392 GTGGTCTTCAAAGAATTTGTACTGGAGGGACAC 25946424 >seq139 Length=1774119 Score = 152 bits (168), Expect = 6e-32 Identities = 601/940 (64%), Gaps = 29/940 (3%) Strand=Plus/Minus Query 162059 CCAGGGACTTATGTCGGAGATACTCGTCTAGACACTGGACCGCGAACACGTCTCGTTCCT 162118 |||||| ||||| | || | ||| || || ||||||| || |||| ||| || Sbjct 481252 CCAGGGCTTTATGCTGCAGGTGCTCATCCAGGCACTGGATGGCAAACAGGTCAACATCTG 481193 Query 162119 CATCGAACTTGTTCGCGAACAGGTGATGCGAGTTCTTCAATATCCAATTAAGATCCCCCG 162178 || |||| ||| || |||| ||| || ||| || |||||||| | || || | Sbjct 481192 TGTCAAACTCGTTGGCAAACAAGTGGTGT---TTCCGCAGCATCCAATTCAAGTCGCCAG 481136 Query 162179 ATCCGAACACGCACACGGACCGCACGTGCACGCCGCTGCACGGCGGATACAGGGCCCCAT 162238 ||||||||| ||||| || |||||||| || | | ||| || || | | || || | Sbjct 481135 CTCCGAACACCCACACAGAGCGCACGTGGACACTGTGGCAAGGTGGGCAGGGTGCGCCCT 481076 Query 162239 CGTCCACATCCCCCTCGTAGTATTGCCACTTAACGAACCTAGTGATAGCCTGCATGTCGG 162298 | ||| || || || | || |||||||| || ||||| | || || | Sbjct 481075 TGGACACGTCACCTTCAAAATACTGCCACTTGACAAACCTTGAGACAGACAA-------- 481024 Query 162299 AGGTGTCGTACTTGTACACTGACGGCACGGCTCCAGGAACACCCGGCAGTCTCTGTAGAG 162358 |||||||||| | | | || | || || || ||| | || || | | Sbjct 481023 ----GTCGTACTTGCGGCTTAATGATACAGAGCCCGGCACTAACGGGATCCTTTGGATGG 480968 Query 162359 TAGCCCACAGGTGTTCGTCTGGACTATACGTCTCCTTCGACCACTCCATGAACTCCCTGA 162418 | ||||| || | ||||| || | || || |||| || ||||||| | |||| | || Sbjct 480967 TGGCCCAGAGATACTCGTCCGGGCGGTAGGTGTCCTGCGCCCACTCCCTAAACTTC-TGG 480909 Query 162419 CCGTTTTA-TCGTATAGAATGTAAGAGACGTAGGACCTGGTCACAATAAAGTACGCGCTA 162477 | ||||| || | || | |||| | || ||| | || | |||||| || || Sbjct 480908 CTGTTTTCGTCCTCCAGCACGTAACCCAAATACTCCCTCCTGACCACAAAGTAGGCACTG 480849 Query 162478 CCAGAAAACACGGGTATGCGTATAGGAGGGGGCTCTTT----GTCTTGACCCGTGTTGAC 162533 || || || | || ||| | | ||||| || | || |||| ||||||| | Sbjct 480848 CCTGAGAAGAGAGGGATGGGGAGCGGAGGCCGCACCTTCACCGTCT----CCGTGTTTAT 480793 Query 162534 TACCATTCCCTCTACGACCACGTGTCTCTTCCTCCACCTGGCCATCTTACTGGTAGACGG 162593 | | | || | || | || || || ||||||| | || ||||| | | Sbjct 480792 AAGCCTCCCATTCACAATGGCGATGCTTTT--TCCACCTTTCTTCCTCACTGGATGGCAT 480735 Query 162594 GTGTTCGGTCTCTAGACTGTTACGACCCCCCAAGGCCTTCAGCTGACGCACCATCTCTAG 162653 || || || || |||| ||| || | ||| |||| | || ||||| || Sbjct 480734 CCTCTCCGTTTCCAGGTTGTTCTCGCCCATTAACGACTTGAGCTTTCTGACTATCTCCAG 480675 Query 162654 ATTGGTCTTAAGGGGAAAGTCGGTGCCGCAGAGATTAATAACATATTTCCACTTAACGCT 162713 ||| | || | ||| || || | ||||| || || || | || || || | | || Sbjct 480674 GTTGATTTTGATGGGGAAATCCATCCCGCAAAGGTTGATCAAGTACTTGCAGTCCGCACT 480615 Query 162714 GAGTCCGTACAGATCCTGTAGACAGTTCAGATCGGCCTGGACGCGACTCCACGACGCGTA 162773 || || || || ||| | |||| || ||||||||||||||||||||||| || || Sbjct 480614 CAGGCCATAGAGGTCCCTCATGCAGTGGAGGTCGGCCTGGACGCGACTCCACGAGGCATA 480555 Query 162774 CACGACGCTCTCCAACCTAGTGGCGACAAAGACATTGTCGAAACACGAAACTATCCCCAT 162833 ||| ||| |||||| | | |||| || ||||| || |||||| | | | ||| | Sbjct 480554 CACCACGGTCTCCAGCTGACTGGCCACGAAGACGTTCGTGAAACAGGGCGCGAGGCCCCT 480495 Query 162834 CACGGCCAGTGAGAACA-TCGGGTCCGCTTTCCTATCTACGTGTACGCAGTATAGATTCT 162892 || | ||| ||| | | |||| ||||| ||||| | ||| || || |||| Sbjct 480494 GACCG-CAGCTGGAAGAGATGCCTCCGACTTCCTGTCTACACCAATGCAATAGAGGTTCT 480436 Query 162893 GAGGGGCGTAGATGGCCCTCAGTAATCTCTCGAACATCTCTATCTTATGGTGTACCACGA 162952 |||| |||| |||||||| | | | || | |||||| || || || || ||||||| Sbjct 480435 GAGGCATGTAGCTGGCCCTCGGGAGCTTGTCCAGCATCTCGATTTTGTGATGAACCACGA 480376 Query 162953 TAGAATACGCTATGGGGAACTCAGCCTCCTCGCGACTGAG 162992 ||||||| || ||||| ||||| ||| | || |||||| Sbjct 480375 TAGAATAAGCAATGGGAAACTCTGCCCCTTCTTTACTGAG 480336 >seq8 Length=54109746 Score = 113 bits (124), Expect = 5e-20 Identities = 432/665 (65%), Gaps = 19/665 (3%) Strand=Plus/Plus Query 176887 TCCAGTTAAAGTATTGAAGATAAAGGGTGACGTTTTTATCGATGGCGTTGAGGTGCGAGG 176946 ||||||||||||| ||| || || || |||||| |||| | || | | | | Sbjct 19822530 TCCAGTTAAAGTAACTAAGGTATAGCTTGTTGTTTTTGTCGACCTCCTTCAAATACTTTG 19822589 Query 176947 CCAGTTCTATAGGGGACGTGTAGTCGTTCACGTGAATGAAAGCGTCTCCCGGGACGTAAT 177006 | || || | || || | || || | || |||||||| | ||| | || | |||| Sbjct 19822590 CTAGCTCACTGGGAGAATTATAATCTTCTACATGAATGAATGAATCTGCTGGAATATAAT 19822649 Query 177007 TTTCGTAATTCTCTCTCGATGTTCCGAGTACTATGGGTACCGCACCTGCCATAAGAGATC 177066 | || || || || || || | || || || | || || | || |||| || || Sbjct 19822650 TCTCATAGTTTTCCCTAGAAGGCCCCAGAACAACAGGCACAGAGCCAGCCAGAAAAGCAT 19822709 Query 177067 GGTAGAGTTTTTCGGTAATATAGTCCCTGTGTACGGAGTTCTCAAACGCGAGATAGAATT 177126 |||||| ||||| || || || || | || | |||||| ||||| | |||||||||| Sbjct 19822710 TGTAGAGCTTTTCTGTGATGTAATCTTTATGGATGGAGTTTTCAAAGGAAAGATAGAATT 19822769 Query 177127 TACAGGAAGATA--GTAGCGGGATGAAGTCATCATCGGGTATATAATCTCCTACTACGTT 177184 |||| | ||||| ||| || || || | | ||| | ||| ||||| | | | Sbjct 19822770 TACAAGTAGATATGGTA--GGAATCAAATTTTTATCATTGACATATTCTCCAAACGCTTG 19822827 Query 177185 CCCGTATACATGTATATCTATGTGTTTACTGAGCTCTAGGTAGTATCTCGA-TCTCACGT 177243 ||| || ||| || || ||| |||||| ||||| || || || || || | | Sbjct 19822828 CCCATAGGTATGGATTTCAATGCTTTTACTTAGCTCATTATAATA-CTTGACCCTGGCAT 19822886 Query 177244 GGTCGTTGTTCCAATTGCTGACGACCCAGCAAACTAACTTGCTCTTTG-CGGGAACGGGA 177302 | || |||||| || || || ||||| || || ||||| ||||||| || || Sbjct 19822887 GCTCAGGGTTCCAGTTACTTACAACCCAACATACCAACTT-CTCTTTGTTTGGCAC---- 19822941 Query 177303 TTC-GATACTAATGCAGTGTCT-CTGAGCGTTAGTGATCCATAGGGCACGTGAATATCCG 177360 ||| | || || | || | | || | ||| | | ||||| ||||| || ||||| | Sbjct 19822942 TTCAAACACGAA-GGGGTTTGTGCTCACCGTCAAGAAGCCATAAGGCACTTGGATATCTG 19823000 Query 177361 AGTCGCGTCTGTACGTTAACGTGAGATTGAAAAGGTTTTCTATAC--CTTGTTTGAAGGG 177418 |||| || | || || | || || || || |||| || || | || |||| ||| Sbjct 19823001 AGTCACGGCGATAAGTCAGAGTCAGGTTAAACAGGTGCTCGATTCCACTCTTTTG--GGG 19823058 Query 177419 GCTGTTACTGGGCGATTCTAAGTTCATCCATATCCACTTTTGAAAGGTTGGTCTGGGTTC 177478 | | | | || ||||| ||||||||||| ||||| || || |||| || || | || Sbjct 19823059 AGTATGAGTTGGTGATTCCAAGTTCATCCAAATCCATTTCTGGAAGGGCGGCCTAGCTTG 19823118 Query 177479 CGTAGGTAGAGTATAAGGATCTATACTTATCTCTCTGTGGTGAAAGACTACGGCATTGGC 177538 | ||||| || |||| ||| || |||| ||| || | || || |||| | Sbjct 19823119 CTGAGGTAAGTTAGTCAGATCCCAACTGATGTCTCGGTGATGGATGAGAACTGCATGCGA 19823178 Query 177539 TTTGT 177543 ||||| Sbjct 19823179 TTTGT 19823183 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 578356652001600