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_001510.1 Length=5149 Score E Sequences producing significant alignments: (Bits) Value seq560 847 0.0 >seq560 Length=1076375 Score = 847 bits (938), Expect = 0.0 Identities = 1140/1567 (73%), Gaps = 25/1567 (2%) Strand=Plus/Minus Query 276 TACTCTGATGAAGTTTTGGGAGCAACCAACTGGTTAAAGGAAAAA-AGTAACCAGGAAGT 334 ||| |||| ||||| ||| || ||||||| |||| || | || || || ||| Sbjct 41166 TACACTGAGGAAGTCCTGGACACAGTCAACTGGCTAAAAGACCACCAGGAAAAAG-AAGC 41108 Query 335 GTTCTCATTTGTTTTTAAAAATGAAAATGTTCAACTGAATGGAAAAGATATCGGATGGAA 394 ||||| ||||||||||||| ||| ||||| ||||| || ||| | | | ||| Sbjct 41107 ATTCTCGTTTGTTTTTAAAACTGAGAATGTACAACTAAACCACAAATGTGTGACTTCGAA 41048 Query 395 TAGTTACAAAAAAGAGCTGCAGGAGGACGAGCTGA-AATCTTTACAACGAGGAGCGGAAA 453 | ||| ||| | | |||||| || ||| ||| || | | || ||||| | |||| Sbjct 41047 AAACTACGGCAAATATCCGCAGGACGAAGAGATGAGAAACCTGGTAA-GAGGAACCGAAA 40989 Query 454 CTACTTGGGACCAAAGCGAGGACATGGAATGGGAAACC-ACAGTGGATGAAATGACCAAA 512 | | ||| | || || |||||||||||| | ||| |||||||||| |||| Sbjct 40988 CGGCACTGGATGCAGCTGAAGATATGGAATGGGAATCAGACA-TGGATGAAATCTGCAAA 40930 Query 513 AAGCAAGTATTCATTTTTGATTCTTTGGTTAAAAAATGTTTATTTGAAGTGCTTA-ACAC 571 || |||| | ||||||| | | |||||||||||| | |||||||| || | || Sbjct 40929 CAGTCAGTAACAACTTTTGATGCAATTGTTAAAAAATGTCTTTTTGAAGTAATTTTAAAC 40870 Query 572 AAAGAATATATTTCCTGGTGA-TGTTAATTGGTTTGTGCAACATGAATGGGGAAAAGACC 630 ||| | | | ||| || ||||| | ||||| | || |||||| || |||||| Sbjct 40869 AAACA-TGTTGATCCAAAAGACTGTTACT-GGTTTATTCAGCATGAACATGGCAAAGACA 40812 Query 631 AAGGCTGGCACTGCCATGTACTAATTGGAGGAAAGGACTTTAGT-CAAGCTCAAGGGAAA 689 | || || || ||||| || | || ||||| || |||| || ||| || ||| Sbjct 40811 CTGCCTACCATTGTCATGTCTTACTAGGTGGAAAA-ACCCTAGTACAGGCTATGGGCAAA 40753 Query 690 TGGTGGAGAAGGCAACTAAATGTTTACTGGAGCAGATGGTTGGTAACAGCCTGTAATGTG 749 |||| |||| |||||||||| |||||||||| ||||| ||| | | Sbjct 40752 TGGTTCAGAAAGCAACTAAATTCAATGTGGAGCAGATACTTGGTTGGTTTGTGTGAAATA 40693 Query 750 CAACTAACACCAGCTGAAAGAATTAAACTAAGAGAAATAGCAGAAGACAATGAGTGGGTT 809 || || |||| ||| | ||||| || ||||||||| |||||| ||| ||||||| Sbjct 40692 GTTCTGACTCCAGTTGAGCGGATTAAGCTCAGAGAAATAATAGAAGATAATCAGTGGGTG 40633 Query 810 ACTCTACTTACTTATAAGCATAAGCAAACCAAAAAAGACTATACCAAGTGTGTTCTTTTT 869 | ||||| ||||| | || || || |||| |||||| || |||||| || | ||| Sbjct 40632 AGCCTACTAACTTACACTCACAAACAGACCAGAAAAGAATACACCAAGCAAGTAATGTTT 40573 Query 870 GGAAACATGATTGCTTACTATTTT-TTAACTAAAAAGAAAATAAGCACT----AGTCCAC 924 || || |||||||| | |||||| ||||| ||||| ||||| ||||| ||| | Sbjct 40572 GGCAATATGATTGCCTTTTATTTTCTTAAC-AAAAATAAAAT--GCACTCTAAAGTGCGA 40516 Query 925 CAAGAGACGGAGGCTATTTTCTTAGCAGTGACTCTGGCTGGAAAACTAACTTTTTAAAAG 984 |||| || || | ||| |||| ||| ||| |||||||| ||| | | |||| Sbjct 40515 AAAGAT-----GGTTACTATCTCAGCACTGATCATGGTTGGAAAACCAACATGATGAAAG 40461 Query 985 AAGGCGAGCGCCATCTAGTGAGCAAACTATACACTGATGACATGCGGCCAGAAACGGTTG 1044 || || | || ||||| || || ||| |||| | | ||| |||||||||| Sbjct 40460 AAAAGGACAGGCAGCTAGTTGCTAAGCTGTACGCTGAACAAGTTAAGCCGGAAACGGTTG 40401 Query 1045 AAACCACAGTAACCACTGCGCAGGAAACTAAGCGCGGCAGAATTCAAACTAAAAAAGAAG 1104 ||||||||||||| ||||| || ||| ||||||||||||||||||||||||||||| | Sbjct 40400 AAACCACAGTAACAACTGCTCAAGAACAAAAGCGCGGCAGAATTCAAACTAAAAAAGAGG 40341 Query 1105 TTTCTATTAAAACTACACTTAAAGAGCTGGTGCATAAAAGAGTAACCTCACCAGAGGACT 1164 | ||||||||| | || || ||||| | ||||| || |||||||| |||| Sbjct 40340 TGTCTATTAAAGTGATGCTATGTGACCTGGTAAACCCCAGAGTCACGTCACCAGAAGACT 40281 Query 1165 GGATGATGATGCAGCCAGACAGTTACATTGAAATGATGGCTCAACCAGGTGGAGAAAACC 1224 |||||||| |||||||||| ||||| || |||||||||||| ||||||| || ||||| | Sbjct 40280 GGATGATGCTGCAGCCAGATAGTTATATAGAAATGATGGCTTAACCAGGCGGTGAAAATC 40221 Query 1225 TGCTGAAAAATACGCTAGAGATTTGTACACTAACTCTAGCCAGAACCAAAACAGCATTTG 1284 | || |||| || |||| |||||||| |||||| | || |||| ||||| ||||||| Sbjct 40220 TTTTGGAAAACACATTAGAAATTTGTACTCTAACTTTGGCTTGAACAAAAACTGCATTTG 40161 Query 1285 ACTTAATTTTAGAAAAAGCTGAAACCAGCAAACTAACCAACTTTTCACTGCCTGACACAA 1344 | ||||| |||||||| | | | |||| ||||||| | ||| | || || Sbjct 40160 ATTTAATCACTGAAAAAGCAGCACAAAAAGAACTTACCAACTATGTGCTGGCCGAGTCAT 40101 Query 1345 GAACCTGCAGAATTTTTGCTTTTCATGGCTGGAACTATGTTAAAGTTTGCCATGCTATTT 1404 | || | ||| || | |||| ||||||||| || |||| | |||||||| Sbjct 40100 GCACAGCTAAAATCTTCAAACTACATGACTGGAACTACATTGAAGTATTACATGCTATGA 40041 Query 1405 GCTGTGTTTTAAACAGACAAGGAGGCAAAAGAAATACTGTTTTATTTCATGGACCAGCCA 1464 ||||||| ||||||||| ||||| |||| | || || || |||| |||||||| |||| Sbjct 40040 TCTGTGTTCTAAACAGACCAGGAGACAAACGGAACACAATTCTATTACATGGACCTGCCA 39981 Query 1465 GCACAGGCAAATCTATTATTGCACAAGCCATAGCACAAGCAGTTGGCAATGTTGGTTGCT 1524 |||| || ||| ||||||||||||| |||||| || |||| |||||||| || | Sbjct 39980 GCACTGGAAAAAGCATTATTGCACAAGTCATAGCTCAGTGTATTGGTAATGTTGGCTGTT 39921 Query 1525 ATAATGCAGCCAATGTAAACTTTCCATTTAATGACTGTACCAACAAGAACTTGATTTGGG 1584 | |||||||| ||||| ||||||||||||||||||||||||||||| ||| | || |||| Sbjct 39920 ACAATGCAGCAAATGTGAACTTTCCATTTAATGACTGTACCAACAAAAACCTAATATGGG 39861 Query 1585 TAGAAGAAGCTGGTAACTTTGGACAGCAAGTAAACCAGTTTAAAGCCATTTGCTCTGGTC 1644 |||||||||| || |||||| | | ||||||||||| |||||||| ||||| || |||| Sbjct 39860 TAGAAGAAGCGGGAAACTTTAGTAACCAAGTAAACCAATTTAAAGCTATTTGTTCAGGTC 39801 Query 1645 AAACTATTCGCATTGATCAAAAAGGAAAAGGCAGCAAACAGATTGAACCAACACCAGTCA 1704 ||||||| | ||||| ||||||| ||||||||||| || || |||||||| ||||| | Sbjct 39800 AAACTATAAGAATTGACTAAAAAGGCAAAGGCAGCAAGCAAATAGAACCAACTCCAGTTA 39741 Query 1705 TCATGACCACAAATGAGAACATTACAGTGGTCAGAATAGGCTGCGAAGAAAGACCAGAAC 1764 | ||||| || ||||| |||| || || ||||| ||||| |||||||||||||||| Sbjct 39740 TAATGACAACCAATGAAGACATCACCAAAGTTAGAATTGGCTGTGAAGAAAGACCAGAAC 39681 Query 1765 ACACTCAACCAATCAGAGACAGAATGCTTAACATTCATCTAACACATACCTTGCCTGGTG 1824 ||||||||||||||||||| |||||||| ||||||| ||| ||||||| |||| || | Sbjct 39680 ACACTCAACCAATCAGAGATAGAATGCTCAACATTCCTCTCACACATAAACTGCCAGGAG 39621 Query 1825 ACTTTGG 1831 ||||||| Sbjct 39620 ACTTTGG 39614 Score = 266 bits (294), Expect = 1e-67 Identities = 535/785 (68%), Gaps = 54/785 (7%) Strand=Plus/Minus Query 1877 AAAGAATGGTTACCAATCTACCATGGCAAGCTACTGTGCTAAAT-GGGGCAAAGTTCCTG 1935 ||| ||| ||| ||| | || |||||||||||| ||| || |||| || || || | Sbjct 39471 AAAAAATAATTATCAACCAACAATGGCAAGCTACA-TGCACCATTGGGGGAATGTACCCG 39413 Query 1936 ATTGGTCAGAAAACTGGGCGGAGCCAAAGGTGCCAACTCCTATAAATTTACTA---GGTT 1992 ||||||||||||||||||||||||||||| | | | |||||||| ||| | | || Sbjct 39412 ATTGGTCAGAAAACTGGGCGGAGCCAAAGATAGCTCCAGCTATAAATGTACCAACAGCTT 39353 Query 1993 CGGCACGCTCACCATTCACGACACCGAAAAGTACGCCTCTCAGCCAGAACTATGCACTAA 2052 | || ||||| || | || | || || || ||||||||||||||||| ||||| | Sbjct 39352 CTCCAAACTCACTATCTCCAACGACCAAGAGCACTCCTCTCAGCCAGAACTACGCACTCA 39293 Query 2053 CTCCACTTGCATCGGATCTCGAGGACCTGGCTTTAGAGCCTTGGAGCACACCAAATACTC 2112 ||||| | || || || | |||||| ||| | || ||||||||| | ||| | || | Sbjct 39292 CTCCATTGGCCAGCGACCTTGCGGACCTTGCTCTGGAACCTTGGAGCTCTCCAGACACAC 39233 Query 2113 CTGTTGCGGGCACTGCAGAAACCCAGAACACTGGGGAAGCTGGTTCCAAAGCCTGCCAAG 2172 || | | || || || ||| || ||| | | |||| ||| || ||| Sbjct 39232 CTTTGGTGGCCAATGT-GAA---CAATACAATTGTTCT--TGGTGGAGAAGGCTCTCAAC 39179 Query 2173 ATGGTCAACT--GAGCCCAACTTGGTCAGAGATCGAGGAGGATTTGAGAGCGTGCTTCGG 2230 || ||| | ||||||||||||||||||||| || | || ||||||| || || | Sbjct 39178 CTG--CAATTCAGAGCCCAACTTGGTCAGAGATAGAAAAAGACCTGAGAGCTTGTTTTG- 39122 Query 2231 TGCGGAACCGTTGAAGAAAGA--CTTCAGCGAGCCGCTGA-ACTTGGACTAAGGTACGAT 2287 || ||||| ||| |||||| | | || | ||||| ||||||| || | Sbjct 39121 -----AA-----GAAGACAGAAGCTTCAGTGGCCTGCCGGCACTTG-ACTAAGGCACCA- 39074 Query 2288 GGCGCCTCCAGCTAAAAGNNNNNNNNNNNNNNNGGGTT--TA-AGGGATGGTTGGTTGGT 2344 || || || || ||||| || ||||| ||| ||||| Sbjct 39073 -------CCGGCCAAGAGGGCGCGAAGAGGTAAGGGTTGGTACAGGGAGGGTGGGTTG-- 39023 Query 2345 GGGGTATTAATGTTTAATTACCTGTTTTACAGGCCTGAAATCACTTGGTTTTAGGTTGGG 2404 ||||| || ||| | | || | | | || ||||||||| | Sbjct 39022 ------TTAATA---AAATACATATAGTAATATTAT--ACTTTTTTTTTTTTAGGTTTTG 38974 Query 2405 TGCCTCCTGGCTACAAGTACCTGGGACCAGGGAACAGCCTTGACCAAGGAGAACCAACCA 2464 ||||||| || ||||| ||||| |||||||| ||| || ||||||| |||||| || | Sbjct 38973 TGCCTCCGGGATACAAATACCTTGGACCAGGCAACTCACTAGACCAAGAAGAACCTACAA 38914 Query 2465 ATCCATCTGACGCCGCTGCCAAAGAGCACGACGAGGCCTATGATCAATACATCAAATCTG 2524 ||||||||||||| ||||| ||||| ||| ||||||| ||||| |||||| | ||||||| Sbjct 38913 ATCCATCTGACGCAGCTGCAAAAGAACACAACGAGGCTTATGACCAATACCTAAAATCTG 38854 Query 2525 GAAAAAATCCTTACCTGTACTTCTCTGCTGCTGATCAACGCTTTATTGACCAAACCAAGG 2584 | ||||||||||| | ||||| || | ||||||| ||||||| || ||||| | | Sbjct 38853 GTAAAAATCCTTATTTTTACTTTTCACCCTCTGATCAGTGCTTTATAGAGCAAACTGAAG 38794 Query 2585 ACGCCAAAGACTGGGGAGGCAAGGTTGGTCACTACTTTTTTAGAACCAAGCGCGCTTTTG 2644 || ||||| ||||||||| | || |||||||| ||| || | ||||| || ||| Sbjct 38793 GGGCAAAAGATTGGGGAGGCCGAATAGGCCACTACTTCTTTCGAGCAAAGCGAGCAGTTG 38734 Query 2645 CACCT 2649 | ||| Sbjct 38733 CTCCT 38729 Score = 221 bits (244), Expect = 4e-54 Identities = 537/793 (68%), Gaps = 34/793 (4%) Strand=Plus/Minus Query 2912 TTGGTGTTTCTACTGGGTCTTATGATAATCAAACG-CATTATAGATTCTTGGGTGACGGC 2970 |||| |||||||| || | ||||||||| ||| |||| | ||||||| ||| | Sbjct 38365 TTGGGGTTTCTACAGGTAGCTTTGATAATCAGACGACATTCAACTTTCTTGGA-GACAGT 38307 Query 2971 TGGGTAGAAATTACTGCACTAGCAACTAGACTAGTACATTTAAACATGCCTAAATCAGAA 3030 ||| ||||| || || | ||| | ||||| || ||| |||||||||| ||| ||| Sbjct 38306 GTGGTGGAAATCACCGCGCATGCATCCAGACTCGTTCATCTAAACATGCCAGAATTTGAA 38247 Query 3031 AACTATTGCAGAATCAGAGTTCACAATACAACAGACACATCAGTCAAAGGCAACATGGCA 3090 | ||| || || |||| || | ||| || || || ||| || || || |||| | Sbjct 38246 ACCTACTGAAGGGTCAGTGTGCTTAATTCAGAAG-CAGGACAGGCA--GGTAAGATGGTA 38190 Query 3091 AAAGATGATGCTCATGAGCAAATTTGGACACCATGGAGCTTGGTGGATGCTAATGCTTGG 3150 ||||||||| || ||||| || ||||||||||| | ||||||||||||||| Sbjct 38189 CAAGATGATGAACACACACAAATGGTTACTCCATGGAGCTTAATAGATGCTAATGCTTGG 38130 Query 3151 GGAGTTTGGCTCCAGCCAAGTGACTGGCAATACATTTGCAACACCATGAGCCAGCTTAAC 3210 || |||||| || || | |||||||| ||| ||||| ||||| || | | Sbjct 38129 GGGGTTTGGTTCAGTCCTGGGGACTGGCAGCTAATTAACAACAACATGACAGAGTTGGAG 38070 Query 3211 TTGGTATCACTTGATCAAGAAATATTCAATGTAGTGCTGAAAACTGTTACAGAGCAAGAC 3270 ||||| |||| ||||| | || |||||||| || |||||| | ||||| ||| Sbjct 38069 TTGGTTAGTTTTGAGCAAGAGCTTTTTAATGTAGTACTAAAAACTATCACAGA--AAG-- 38014 Query 3271 TTAGGAGGTCAA---GCTATAAAAATATACAACAATGACCTTACAGCTTGCATGATGGTT 3327 ||| |||| || | ||| | |||||||||||| | || ||| || ||||||| Sbjct 38013 --TGGAACTCAACCTGCAGTCAAAGTCTACAACAATGACTTGACTGCTAGCCTGATGGTA 37956 Query 3328 GCAGTAGACTCAAACAACATTTTGCCATACACACCTGCAGCA--AACTCAATGGAAACAC 3385 || ||||| ||||||| |||| |||||||| || ||| || ||| ||||||| Sbjct 37955 GCTCTAGACAGCAACAACACACTGCCTTACACACCAGCTGCACCAAGACAA--GAAACAC 37898 Query 3386 TTGGTTTCTACCCCTGGAAACCAACCATAGCATCACCATACAGGTACTATTTTTGCGTTG 3445 |||||||| | || ||| ||||||| | || | | ||||| |||||||| || | Sbjct 37897 TTGGTTTCCATCCTTGGCTGCCAACCAAACCAACTCAGTACAGATACTATTTAAGCTGTA 37838 Query 3446 ACAGAGATCTT----TCAGTGACCTACGAAAATCAAGAAGGCACAGTTGAACATAATGTG 3501 ||| | ||| || || ||| | ||| | |||| | ||| ||| Sbjct 37837 CTAGA-AACTTGACGCCACCAACTTACACAGGGCAAACAAGCACCAT--AAC-TAACACC 37782 Query 3502 ATGGGAACACCAAAAG-GAATGAATTCTCAATTTTTTAC-CA-TTGAGAACACACAACAA 3558 || | | || | | | || | | || |||||| || | || ||| || || Sbjct 37781 ATTG---CTCCTATTGATTACAAAGACACCATGTTTTACACAGTGGAAAACTCAGTACCT 37725 Query 3559 ATCACATTGCTCAGAACAGGGGACGAATTTGCCACAGGTACTTACTACTTTGACACAAAT 3618 || |||||||||||||||||||||||| ||| || |||||||| ||||| ||| Sbjct 37724 ATATACTTGCTCAGAACAGGGGACGAATTTAGCACTGGAACTTACTATTTTGATTGCAAT 37665 Query 3619 TCAGTTAAACTCACACACACGTGGCAAACCA-ACCGTCAACTTGGACAGCCTCCACTGCT 3677 || | ||| | |||||||| |||||||| | | ||| |||||| |||||| ||| Sbjct 37664 CCAATCAAAATGACACACACATGGCAAACAACAAGGTC-ACTTGGTTTACCTCCAAAGCT 37606 Query 3678 GTCAACCTTTCCT 3690 | ||| || ||| Sbjct 37605 GCAAACATTACCT 37593 Score = 143 bits (158), Expect = 9e-31 Identities = 235/331 (71%), Gaps = 6/331 (2%) Strand=Plus/Minus Query 4110 TGACATTCATTTTTCAAATGTTTTTAACAGCTATGGTCCACTAACTGCATTTTCACACC- 4168 |||||| ||||||| || | || | |||||||||||| ||||| | |||| Sbjct 37170 TGACATACATTTTTACAACACAATGAATACCTATGGTCCACTCACTGCCACT-CACAATA 37112 Query 4169 CAAGTCCTGTATACCCTCAAGGACAAATATGGGACAAAGAACTAGATCTTGAACACAAAC 4228 || || | ||||| | || ||||| ||||||||| |||||||| ||||| |||| Sbjct 37111 CACCACCATTGTACCCAAATGGGCAAATTTGGGACAAATAACTAGATGTTGAATTAAAAC 37052 Query 4229 CTAGACTTCACATAACTGCTCCATTTGTTTGTAAAAACAATGCACCTGGACAAATGTTGG 4288 | ||||| ||| | | ||||||||||||||| ||||||||| | ||||| ||| |||||| Sbjct 37051 CCAGACTACACGTTAATGCTCCATTTGTTTGCAAAAACAATCCTCCTGGCCAATTGTTGG 36992 Query 4289 TTAGATTAGGACCAAACCTAACTGACCAATATGATCCAAACGGAGCCAC-ACTTTCTAGA 4347 | | | | | || ||||| ||||| | | || | || |||| || |||||| Sbjct 36991 TAAAAATTGATCCTAACCTTACTGATGACTTCAATGCTGAC-TCTCCACAACAATCTAGA 36933 Query 4348 ATTGTTACATACGGTACATTTTTCTGGAAAGGAAAACTAACCATGAGAGCAAAACTTAG- 4406 || || || ||| || |||| ||||||||||| || | | ||||| ||| | || Sbjct 36932 ATAGTGACCTACTCTAACTTTTGGTGGAAAGGAAAGCTCAAATTTAGAGCTAAAATGAGA 36873 Query 4407 AGCTAACACCACTTGGAACCCAGTGTACCAA 4437 ||| || || ||||||||||| ||||| Sbjct 36872 AGCGTCCA-CATGTGGAACCCAGTACACCAA 36843 Score = 84.2 bits (92), Expect = 7e-13 Identities = 72/84 (86%), Gaps = 4/84 (5%) Strand=Plus/Minus Query 71 GTCACACGTCA-CTTA-CGTTTCACATGGTTGGTCAGTTCTAAAAATGATAAGCGGTTCA 128 |||||| |||| || | |||||||||||||||||||||||||| |||||||||||||||| Sbjct 41369 GTCACATGTCATCTCAGCGTTTCACATGGTTGGTCAGTTCTAAGAATGATAAGCGGTTCA 41310 Query 129 GGGAGTTT-AAACCAAGGCGCGAA 151 ||||| ||| |||||| ||| Sbjct 41309 -AAAGTTTAAAATAAAGGCGGGAA 41287 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 16264632005290