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: Apodemus_20sylvaticus_20[genbank_20GCA_5F001305905.1_202015-10-02] 559,629 sequences; 3,758,143,898 total letters Query= NC_001718.1 Length=5075 Score E Sequences producing significant alignments: (Bits) Value seq560 825 0.0 >seq560 Length=1076375 Score = 825 bits (914), Expect = 0.0 Identities = 1191/1655 (72%), Gaps = 44/1655 (3%) Strand=Plus/Minus Query 2925 TTGGTGTGTCTACAGGTACTTTCAATAATCAAACAGAATTTCAA--TACTTGGGGGAGGG 2982 |||| || |||||||||| || ||||||| || || ||||| | ||||| | | | Sbjct 38365 TTGGGGTTTCTACAGGTAGCTTTGATAATCAGAC-GACATTCAACTTTCTTGGAG-ACAG 38308 Query 2983 CTTGGTTAGAATCACTGCACACGCATCAAGACTCATACATCTAAATATGCCAGAACACGA 3042 |||| |||||| || || ||||| |||||| | |||||||| ||||||||| || Sbjct 38307 TGTGGTGGAAATCACCGCGCATGCATCCAGACTCGTTCATCTAAACATGCCAGAATTTGA 38248 Query 3043 AACATACAAAAGAATACATGTACTAAATTCAGAATCAGGGGTGGCGGGACAAATGGTACA 3102 ||| ||| ||| | ||| || ||||||||| |||| ||| || | |||||||| Sbjct 38247 AACCTACTGAAGGGTCAGTGTGCTTAATTCAGAAGCAGGACAGGCAGGTAAGATGGTACA 38188 Query 3103 AGACGATGCACACACACAAATGGTAACACCTTGGTCACTAATAGATGCTAACGCATGGGG 3162 ||| |||| ||||||||||||||| || || ||| ||||||||||||| || ||||| Sbjct 38187 AGATGATGAACACACACAAATGGTTACTCCATGGAGCTTAATAGATGCTAATGCTTGGGG 38128 Query 3163 AGTGTGGTTCAATCCAGCGGACTGGCAGTTAATATCCAACAACATGACAGAAATAAACTT 3222 || ||||||| ||| | |||||||||| |||| ||||||||||||||| | | || Sbjct 38127 GGTTTGGTTCAGTCCTGGGGACTGGCAGCTAATTAACAACAACATGACAGAGTTGGAGTT 38068 Query 3223 AGTTAGTTTTGAACAAGAAATATTCAATGTAGTACTTAAAACAATTACAGAATCAGCAAC 3282 ||||||||||| ||||| | || ||||||||||| ||||| || |||||| | ||| Sbjct 38067 GGTTAGTTTTGAGCAAGAGCTTTTTAATGTAGTACTAAAAACTATCACAGAAAGTGGAAC 38008 Query 3283 CTCACCACCAACCAAAATATATAATAATGATCTAACTGCAAGCTTAATGGTCGCACTAGA 3342 ||| || |||| | || || ||||| | ||||| ||| | ||||| || ||||| Sbjct 38007 TCAACCTGCAGTCAAAGTCTACAACAATGACTTGACTGCTAGCCTGATGGTAGCTCTAGA 37948 Query 3343 CACCAATAACACACTTCCATACACACCAGCAGCACCTAGAAGTGAAACACTTGGTTTTTA 3402 || ||| |||||||| || ||||||||||| ||||| ||| |||||||||||||| | Sbjct 37947 CAGCAACAACACACTGCCTTACACACCAGCTGCACCAAGACAAGAAACACTTGGTTTCCA 37888 Query 3403 TCCATGGTTACCTACAAAACCAACTCAATACAGATATTACCTATCATGCATCAGAAACCT 3462 ||| ||| | || || ||||||||||| |||||||| || || || | |||||| | Sbjct 37887 TCCTTGGCTGCCAACCAAACCAACTCAGTACAGATACTATTTAAGCTGTACTAGAAACTT 37828 Query 3463 AAATCCACCAACATACACTGG----ACAATCACAACAAATAACAGACTCAATACAAACAG 3518 | |||||||| ||||| || |||| ||| | || ||||| | | | | Sbjct 37827 GACGCCACCAACTTACACAGGGCAAACAAGCACCATAACTAACACCATTGCTCCTA--TT 37770 Query 3519 GACTACACAGTGACATTATGTTCTACACAATAGAAAATGCAGTACCAATTCATCTTCTAA 3578 || |||| | |||| ||||| |||||| | ||||| ||||||| || | | || | Sbjct 37769 GATTACAAA--GACACCATGTTTTACACAGTGGAAAACTCAGTACCTATATACTTGCTCA 37712 Query 3579 GAACAGGAGATGAATTCTCCACAGGAATATATCACTTTGACACAAAACCACTAAAATTAA 3638 ||||||| || ||||| ||| |||| || | ||||| || ||| | ||| | | Sbjct 37711 GAACAGGGGACGAATTTAGCACTGGAACTTACTATTTTGATTGCAATCCAATCAAAATGA 37652 Query 3639 CTCACTCATGGCAAACAAACAGATCTCTAGGACTGCCTCCAAAACTACTAACTGAACCTA 3698 | ||| |||||||||||| || || || || | |||||||| || | ||| ||||| Sbjct 37651 CACACACATGGCAAACAACAAGGTCACTTGGTTTACCTCCAAAGCTGCAAACATTACCTA 37592 Query 3699 CCACAGAAGGAGACCAACACCCAGGAACACTA--CCAGCAGCT---AACACAAGAAAAGG 3753 | |||||||| || | || | || ||| | ||| | ||| |||| ||| Sbjct 37591 CTACAGAAGGTGATAACCATTATG--ACTCTATTGGAACAGATCAGGACAAAAGACCAGG 37534 Query 3754 TTATCAC-CAAACAATTAATAATAGCTACACAGAAGCAACAGCAATTAGGCCAGCTCAGG 3812 || || ||||| ||||||| ||| || |||||||| | ||||| |||||| | | Sbjct 37533 -CATGACTCAAACTGTTAATAACAGCATAACTGAAGCAACCACTATTAGACCAGCTAATG 37475 Query 3813 TAGGATATAATACA-CCATACATGAATTTTGAATACTCCAATGGTGGACCATTTCTAACT 3871 |||| | | || || || | ||||| |||||||| ||||| || |||| || || Sbjct 37474 TAGGCT-TTATGCAGCCCTTTATGAACTTTGAATATAGTAATGGAGGGCCATACCTTACA 37416 Query 3872 CCTATAGTACCAACAGCAGACACACAATATAATGATGATGAACCAAATGGTGCTATAAGA 3931 || | ||||||||| |||||||||| |||||||| ||| |||||| |||| ||| Sbjct 37415 CCAAGAGTACCAACCAGAGACACACAAGCAAATGATGACGAAGAAAATGGATCTATCAGA 37356 Query 3932 TTTACAATGGATTACCAACATGGACACTTAACCACATCTTCACAAGA---GCTAGAAAGA 3988 | | |||||||||||||||||||| ||||||| | | || |||| ||| Sbjct 37355 GTGAGCATGGATTACCAACATGGACA---AACCACAACAGCCGGTGACACACTAGGCAGA 37299 Query 3989 TACACATTCAATCCACAAAGTAAATGTGGAAGAGCTCCAAAGCAACAATTTAATCAACAG 4048 ||||||| || ||| || | | ||||||||| ||| || || | | ||| Sbjct 37298 TACACATACACACCAGAATCCACAGCTGGAAGAGCAGGAAA--AAGAAGCT-TCCTACA- 37243 Query 4049 GCACCACTAAACCTAGAA----AATACAAATAATGGAACACTTT--TACCTTCAGATCCA 4102 || || ||| || || | ||| |||| |||||| | || | |||||| Sbjct 37242 -AACTGCT-AACTTACAAATGGAGAACACATAAGCAGGCACTTTGCTGCCAACTGATCCA 37185 Query 4103 ATAGGAGGGAAATCTAACATGCATTTCATGAATACACTCAATACATATGGACCATTAACA 4162 || | ||| ||| || |||| ||||| || ||| | ||||| ||||| ||| | || Sbjct 37184 ATTGCAGGAAAAGCTGACATACATTTTTACAACACAATGAATACCTATGGTCCACTCACT 37125 Query 4163 G-CACTAAACAATACTGCACCTGTATTTCCAAATGGTCAAATATGGGATAAAGAACTTGA 4221 | |||| ||||||| |||| | | |||||||| ||||| ||||| ||| |||| || Sbjct 37124 GCCACT-CACAATACACCACCATTGTACCCAAATGGGCAAATTTGGGACAAATAACTAGA 37066 Query 4222 TACAGATCTAAAACCTAGACTACATGTTACAGCTCCATTTGTTTGTAAAAACAATCCACC 4281 | || ||||||| |||||||| |||| |||||||||||||| ||||||||||| || Sbjct 37065 TGTTGAATTAAAACCCAGACTACACGTTAATGCTCCATTTGTTTGCAAAAACAATCCTCC 37006 Query 4282 AGGACAACTATTTGTAAAAATAGCACCAAACCTAACAGATGATTTCAATGCTGACTCTCC 4341 || ||| | || |||||||| | || ||||| || ||||| ||||||||||||||||| Sbjct 37005 TGGCCAATTGTTGGTAAAAATTGATCCTAACCTTACTGATGACTTCAATGCTGACTCTCC 36946 Query 4342 TCAACAACCTAGAATAATAACTTATTCAAACTTTTGGTGGAAAGGAACACTAACATTCAC 4401 |||||| |||||||| | || || || ||||||||||||||||||| || | ||| | Sbjct 36945 ACAACAATCTAGAATAGTGACCTACTCTAACTTTTGGTGGAAAGGAAAGCTCAAATTTAG 36886 Query 4402 AGCAAAAATGAGATCCAGTAATATGTGGAACCCTATTCAACAACACACAACAACAGCAGA 4461 ||| ||||||||| | | ||||||||||| | || ||||| | | ||| |||| Sbjct 36885 AGCTAAAATGAGAAGCGTCCACATGTGGAACCCAGTACACCAACATTCTGCCACATCAGA 36826 Query 4462 AAACATTGGTAACTATATTCCTACAAATATTGGTGGCATAAGAATGTTTCCAGAATATTC 4521 |||||||||||||| || || || || ||||| || || ||| ||| ||||||| ||| Sbjct 36825 CAACATTGGTAACTACATACCAACCAACATTGGAGGTATGAGACTGTATCCAGAAATTTC 36766 Query 4522 ACAACTTATACCAAGAAAATTATACTAGAAATAAC 4556 |||||| | |||||||| | ||||| || |||| Sbjct 36765 TCAACTTGTGCCAAGAAAGATGTACTA-AACTAAC 36732 Score = 800 bits (886), Expect = 0.0 Identities = 1116/1552 (72%), Gaps = 23/1552 (1%) Strand=Plus/Minus Query 336 CAACTGGCTTCAAGATAATGCTCAAAAAGAAGCATTCTCTTATGTATTTAAAACACAAAA 395 ||||||||| |||| | |||||||||||||||| | ||| |||||||| | || Sbjct 41140 CAACTGGCTAAAAGACCACCAGGAAAAAGAAGCATTCTCGTTTGTTTTTAAAACTGAGAA 41081 Query 396 AGTCAATCTAAATGGAAAAGAAATTGCTTGGAATAACTACAACAAAGATACAACAGATGC 455 || | ||||| ||| | ||| ||| |||||| |||| || | || | Sbjct 41080 TGTACAACTAAACCACAAATGTGTGACTTCGAAAAACTACGGCAAATATCCGCAGGACGA 41021 Query 456 GGAAATGATAAACCTACAAAGAGGAGCAGAAACATCATGGGACCAGGCAACAGACATGGA 515 || |||| |||||| ||||||| | ||||| || ||| || ||| ||||| Sbjct 41020 AGAGATGAGAAACCTGGTAAGAGGAACCGAAACGGCACTGGATGCAGCTGAAGATATGGA 40961 Query 516 ATGGGAATCAGAAATCGACAGCCTCACAAAACGGCAAGTACTGATTTTTGACTCTCTTGT 575 |||||||||||| || || || |||| | |||| | |||||| | |||| Sbjct 40960 ATGGGAATCAGACATGGATGAAATCTGCAAACAGTCAGTAACAACTTTTGATGCAATTGT 40901 Query 576 TAAAAAATGTCTCTTTGAAGGTATATTGCAAAAGAACCTAAGTCCAAGTGACTGCTACTG 635 |||||||||||| ||||||| || || | || | | ||||| ||||| ||||| Sbjct 40900 TAAAAAATGTCTTTTTGAAGTAATTTTAAACAAACATGTTGATCCAAAAGACTGTTACTG 40841 Query 636 GTTCATACAGCATGAACATGGTCAAGATACTGGCTATCACTGCCATGTACTACTAGGTGG 695 ||| || |||||||||||||| |||| |||| ||| || || ||||| |||||||||| Sbjct 40840 GTTTATTCAGCATGAACATGGCAAAGACACTGCCTACCATTGTCATGTCTTACTAGGTGG 40781 Query 696 AAAAGGCTTACAACAAGCAATGGGAAAATGGTTCAGAAAACAATTAAA--CAATTTATGG 753 |||| | || ||| || ||||| |||||||||||||| ||| |||| |||| | || Sbjct 40780 AAAAACCCTAGTACAGGCTATGGGCAAATGGTTCAGAAAGCAACTAAATTCAATGT--GG 40723 Query 754 AGTAGAT----GGTTAATAATGCAATGCAAAGTACCTCTAACACCAGTTGAAAGAATAAA 809 || |||| |||| | || || || || ||| || |||||||| | || || Sbjct 40722 AGCAGATACTTGGTTGGTT-TG---TGTGAAATAGTTCTGACTCCAGTTGAGCGGATTAA 40667 Query 810 ATTAAGGGAATTAGCAGAGGATGGTGAGTGGGTATCGCTACTAACCTACACTCACAAACA 869 | || ||| || ||| ||| | ||||||| |||||||| |||||||||||||| Sbjct 40666 GCTCAGAGAAATAATAGAAGATAATCAGTGGGTGAGCCTACTAACTTACACTCACAAACA 40607 Query 870 AACTAAAAAACAATATACAAAAATGACTCAT-TTTGGAAATATGATTGCTTACTACTTCC 928 || | |||| |||| || || | | || ||||| ||||||||||| | || || | Sbjct 40606 GACCAGAAAAGAATACACCAAGCA-AGTAATGTTTGGCAATATGATTGCCTTTTATTTTC 40548 Query 929 TAAATaaaaaaaGAAAGACAACTGAAA---GAGAGCATGGATATTATCTCAGCTCAGATT 985 | || ||||| | || | || || || | |||| || ||||||||| | ||| Sbjct 40547 TTAACAAAAATAAAATGCACTCTAAAGTGCGAAAAGATGGTTACTATCTCAGCACTGATC 40488 Query 986 CTGGCTTCATGACAAATTTCTTAAAAGAAGGCGAGAGACACTTAGTCAGTCACCTATTTA 1045 ||| | | || || | | |||||| || || || |||| | | || | Sbjct 40487 ATGGTTGGAAAACCAACATGATGAAAGAAAAGGACAGGCAGCTAGTTGCTAAGCTGTACG 40428 Query 1046 CTGAAGCAAATAAACCTGAAACTGTGGAAACAACGGTTACTACAGCTCAGGAAGCCAAAA 1105 ||||| | ||| || ||||| || ||||| || || || || ||||| ||| ||||| Sbjct 40427 CTGAACAAGTTAAGCCGGAAACGGTTGAAACCACAGTAACAACTGCTCAAGAA--CAAAA 40370 Query 1106 GAG--GCAGAATACAAACaaaaaaaGAAGTAAGCATAAAATGCACAATAAGAGACTTGGT 1163 | | ||||||| ||||| |||||||| || || ||| | || | ||| |||| Sbjct 40369 GCGCGGCAGAATTCAAACTAAAAAAGAGGTGTCTATTAAAGTGATGCTATGTGACCTGGT 40310 Query 1164 TAATAAAAGATGTACTAGCATAGAAGACTGGATGATGACAGATCCAGACAGTTATATAGA 1223 || ||| || |||||||||||||||| | ||||| ||||||||||| Sbjct 40309 AAACCCCAGAGTCACGTCACCAGAAGACTGGATGATGCTGCAGCCAGATAGTTATATAGA 40250 Query 1224 AATGATGGCTCAAACCGGAGGAGAAAATTTAATCAAAAATACACTAGAAATAACAACTCT 1283 |||||||||| || | || || |||||| | | |||| ||| ||||||| ||||| Sbjct 40249 AATGATGGCTTAACCAGGCGGTGAAAATCTTTTGGAAAACACATTAGAAATTTGTACTCT 40190 Query 1284 TACTCTAGCAAGAACAAAAACAGCATATGACTTAATACTTGAAAAGGCAAAACCAAGCAT 1343 ||| | || |||||||||| |||| ||| ||||| |||||| ||| || || Sbjct 40189 AACTTTGGCTTGAACAAAAACTGCATTTGATTTAATCACTGAAAAAGCAGCACAAAAAGA 40130 Query 1344 GCT-ACCAACATTTAATATTAGCAATACAAGAACATGTAAAATATTCAGCATGCACAATT 1402 || |||||| | | | | | || | ||| |||||| |||| | || | | Sbjct 40129 ACTTACCAAC-TATGTGCTGGCCGAGTCATGCACAGCTAAAATCTTCAAACTACATGACT 40071 Query 1403 GGAACTACATTAAAGTCTGCCATGCTATAACTTGTGTACTAAACAGACAAGGAGGAAAAA 1462 ||||||||||| |||| | |||||||| | ||||| |||||||||| ||||| ||| Sbjct 40070 GGAACTACATTGAAGTATTACATGCTATGATCTGTGTTCTAAACAGACCAGGAGACAAAC 40011 Query 1463 GAAATACAATTCTATTTCATGGGCCAGCATCAACAGGAAAAAGTATAATTGCTCAACACA 1522 | || ||||||||||| ||||| || || || |||||||| || ||||| ||| || Sbjct 40010 GGAACACAATTCTATTACATGGACCTGCCAGCACTGGAAAAAGCATTATTGCACAAGTCA 39951 Query 1523 TTGCAAACTTAGTTGGTAATGTTGGTTGCTACAATGCAGCCAATGTGAACTTTCCATTTA 1582 | || | | ||||||||||||| || ||||||||||| ||||||||||||||||||| Sbjct 39950 TAGCTCAGTGTATTGGTAATGTTGGCTGTTACAATGCAGCAAATGTGAACTTTCCATTTA 39891 Query 1583 ATGACTGTACAAATAAAAACTTAATATGGATTGAAGAAGCAGGAAACTTCTCTAACCAAG 1642 |||||||||| || |||||| |||||||| | |||||||| |||||||| |||||||| Sbjct 39890 ATGACTGTACCAACAAAAACCTAATATGGGTAGAAGAAGCGGGAAACTTTAGTAACCAAG 39831 Query 1643 TAAACCAATTCAAAGCCATATGTTCAGGTCAAACAATTAGAATTGACCAAAAAGGTAAAG 1702 |||||||||| ||||| || |||||||||||||| || ||||||||| ||||||| |||| Sbjct 39830 TAAACCAATTTAAAGCTATTTGTTCAGGTCAAACTATAAGAATTGACTAAAAAGGCAAAG 39771 Query 1703 GAAGCAAACAAATTGAACCAACTCCTGTAATAATGACTACAAATGAAGACATAACTAAAG 1762 | ||||| ||||| ||||||||||| || |||||||| || ||||||||||| || |||| Sbjct 39770 GCAGCAAGCAAATAGAACCAACTCCAGTTATAATGACAACCAATGAAGACATCACCAAAG 39711 Query 1763 TTAGAATAGGATGCGAGGAAAGACCAGAACATACACAACCAATAAGAGACAGAATGTTAA 1822 ||||||| || || || |||||||||||||| || |||||||| ||||| |||||| | | Sbjct 39710 TTAGAATTGGCTGTGAAGAAAGACCAGAACACACTCAACCAATCAGAGATAGAATGCTCA 39651 Query 1823 ACATAAACCTAACCAGAAAACTGCCAGGTGATTTTGGACTTTTAGAAGAAAC 1874 |||| || || ||||||||||| || ||||||||||| || | ||| Sbjct 39650 ACATTCCTCTCACACATAAACTGCCAGGAGACTTTGGACTTTTGGATGCAAC 39599 Score = 210 bits (232), Expect = 7e-51 Identities = 190/239 (79%), Gaps = 0/239 (0%) Strand=Plus/Minus Query 2399 CCAGGATACAAATACCTTGGTCCAGGAAACTCACTAGACCAAGGAGAACCAACTAATCCA 2458 || ||||||||||||||||| ||||| |||||||||||||||| |||||| || |||||| Sbjct 38968 CCGGGATACAAATACCTTGGACCAGGCAACTCACTAGACCAAGAAGAACCTACAAATCCA 38909 Query 2459 TCAGACGCCGCAGCAAAAGAACACGACGAAGCCTACGACAAATACATAAAATCTGGAAAA 2518 || ||||| || |||||||||||| |||| || || ||| ||||| |||||||||| ||| Sbjct 38908 TCTGACGCAGCTGCAAAAGAACACAACGAGGCTTATGACCAATACCTAAAATCTGGTAAA 38849 Query 2519 AATCCATACTTCTACTTCTCAGCAGCTGATGAAAAATTCATAAAAGAAACTGAACACGCA 2578 ||||| || || ||||| ||| | ||||| | || ||| | |||||||| ||| Sbjct 38848 AATCCTTATTTTTACTTTTCACCCTCTGATCAGTGCTTTATAGAGCAAACTGAAGGGGCA 38789 Query 2579 AAAGACTACGGAGGTAAAATTGGACATTACTTCTTCAGAGCAAAGCGTGCCTTTGCTCC 2637 ||||| | ||||| ||| || || |||||||| |||||||||| || ||||||| Sbjct 38788 AAAGATTGGGGAGGCCGAATAGGCCACTACTTCTTTCGAGCAAAGCGAGCAGTTGCTCC 38730 Score = 107 bits (118), Expect = 6e-20 Identities = 94/116 (81%), Gaps = 6/116 (5%) Strand=Plus/Minus Query 1914 TTACCAAGCAACAATGGCTAGCTATATGCATCATTGGGGAAATGTACCTGATTGGTCAGA 1973 ||| ||| |||||||||| ||||| ||||| |||||||| |||||||| ||||||||||| Sbjct 39462 TTATCAACCAACAATGGCAAGCTACATGCACCATTGGGGGAATGTACCCGATTGGTCAGA 39403 Query 1974 AAAATGGGAGGAGCCAAAAATGCAAACCCCA---ATAAATACACCAACAGACTCTC 2026 ||| |||| ||||||||| || | | ||| |||||| |||||||| |||| Sbjct 39402 AAACTGGGCGGAGCCAAAGAT---AGCTCCAGCTATAAATGTACCAACAGCTTCTC 39350 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 16029281444400