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: Neotoma_20lepida_20[genbank_20GCA_5F001675575.1_202016-06-23] 119,373 sequences; 2,353,855,022 total letters Query= NC_020474.2 Length=180421 Score E Sequences producing significant alignments: (Bits) Value seq87223 329 4e-85 seq112772 102 9e-17 seq34769 95.1 1e-14 >seq87223 Length=339319 Score = 329 bits (364), Expect = 4e-85 Identities = 672/989 (68%), Gaps = 19/989 (2%) Strand=Plus/Minus Query 160052 CAGATGTTCGTCCAGACATTGGACGGCGAACACGTCAACGTCTTCGTCGAATTTATTTGC 160111 |||||| || |||| ||| |||| ||| | |||||| || ||| || ||||| || Sbjct 190262 CAGATGCTCATCCAAACACTGGATGGCAANNGGGTCAACATCCATGTCAAACTTATTGGC 190203 Query 160112 GAACAGATGGTGAGCGTTCTGTAGGATCCAGTGCACGTCTCCGGACCCGAACACGCAGAC 160171 ||| | ||||| | | | || ||||| ||| ||| || | ||||| || ||||| Sbjct 190202 GAAAAAGTGGTGTGTGC---GAAGCATCCACCGCAAGTCACCAGCTCCGAAAACACAGAC 190146 Query 160172 GGAACGTATGTGCACGCCGTTGCAAGGCGGGTACAGAGCTCCTTTCGCCACGTCACCTTC 160231 ||| || | || || ||| |||| || ||||| |||| ||||| | || |||||||| Sbjct 190145 GGAGCGCACATGGACCCCGCTGCACGGTGGGTAAGGAGCGCCTTTGGAAACATCACCTTC 190086 Query 160232 GTAGTACTGCCACTTCACAAACCTGGCTATCGCCTGCATGTCGGAGGTGTCGTATTTGTA 160291 ||||||||||||| |||||||| || | || | |||||| || ||| || || | Sbjct 190085 AAAGTACTGCCACTTGACAAACCTAGCAACAGCATTCATGTCAGACAAGTCATACTTATG 190026 Query 160292 -CATCAGGGGAACGGCACCGGGAACGCCGGGCATACGCTGTAGGGTGGCCCACAGGTGTT 160350 | | |||||| | ||| || || |||| || | ||| | |||||||| |||| | Sbjct 190025 GCTTGAGGGGAGAGA-ACCAGGGACTTCGGGGATCCTCTGGATAGTGGCCCAGAGGTACT 189967 Query 160351 CGTCGGGGCTGTACGTGTCCTTAGACCATTCCATGAACTCTCCGAT--TAACCTGTCCCG 160408 | || |||||||| ||||||| | ||| |||||||||| | ||| | | | | | Sbjct 189966 CATCCGGGCTGTATGTGTCCTGTGCCCACTCCATGAACTTTTGGATATTTTCATTTTCT- 189908 Query 160409 CAGAACGTGAGTAACGTAGGATCTGGTCACGACAAAGTACGCGCTGCCGGAGAATATCGG 160468 || || | | || || | || |||||||| || ||||| || || | || Sbjct 189907 -AGCACATAGCCTATATATTCCCTACTGACTACAAAGTAGGCACTGCCTGAAAAAAGAGG 189849 Query 160469 ---TATGGGTATAGGCGGCGTGTCTTTGTCCTGACCGGTGTTAGACACCACTCCTTTCAC 160525 | || || ||| |||| ||||| | || ||||| | || | || | || Sbjct 189848 AGTTTTGAGTGGAGGTGGCG---CTTTGACTACCCCCGTGTTGGTCAGCTTCCCGTCAAC 189792 Query 160526 CAGCGCGTGTCGCTTCTTCCACCTGACCATCTTGTGCGGTGGCATGCGTTCCGTCTCTAG 160585 | |||| || || ||||| || || ||||| | | ||||| || || ||||| Sbjct 189791 GATGGCGTACCGTTTTTTCCATCTTTCCTCCTTGTTCTGAGGCATCTTCTCAGTTTCTAG 189732 Query 160586 ACTGTTGGCACCGTCGAGCGATTTCAGCTGCTTGACGATCTCTAGGTTCGTCTTGAGCGG 160645 |||| |||| ||| || || |||| | |||| || |||||||| || |||| || Sbjct 189731 GTTGTTCTCACCCGAGAGTGACTTGAGCTTCCTGACAATTTCTAGGTTGGTTTTGATAGG 189672 Query 160646 AAAGTCGGTACCGCACAAGTTTATCACGTACTTCCATTTCGCGCTCAGGTCGTGCAGGTC 160705 || || |||| || | || |||| ||||||||| || || |||| | |||||| Sbjct 189671 GAAATCCATACCACAAAGATTGATCAAGTACTTCCAGTTTGCACTCATTCTATACAGGTC 189612 Query 160706 CCTCATGCAATTAATATCTGCCTGCACGCGGCTCCAGGAAGCGTACACTACGTTCTCTAG 160765 | |||| || || | || ||||| || || |||||||| || || || || ||||| | Sbjct 189611 CTTCATACAGTTGAGGTCAGCCTGAACCCGACTCCAGGATGCATAAACAACATTCTCCAA 189552 Query 160766 TTTACTGGCCACAAAGACGTTATCGAAACACGACACGATTCCCACCACCGCCAG--AAAG 160823 | |||||||||||||| ||||| || || || | || |||| ||| | ||| ||| Sbjct 189551 CTGGCTGGCCACAAAGACATTATCAAAGCAGGATGCAATGCCCATCACTG-CAGCTAAAA 189493 Query 160824 AACATCTTATCCGCCTTTCGGTCCACGTGCACGCAATACAGGTTCTGAGGCGCGTAGATG 160883 | || | || || ||| |||||| || | ||| || | ||||||||| |||||| Sbjct 189492 AGGAT-TCCTCTGCTTTTTTGTCCACATGAATGCAGTAGAAATTCTGAGGCATATAGATG 189434 Query 160884 GCCCTGAGCAACCTCTCGAACATCTCTATCTTATGATGGATCACGATAGAGTAGGCTATC 160943 ||||| || | ||| || | ||| || ||||| ||||| | ||| || || || || || Sbjct 189433 GCCCTCAGGAGCCTATCAAGCATTTCAATCTTGTGATGAACCACTATGGAATATGCAATT 189374 Query 160944 GGAAACTCGGTCTCCTCGCGACTCAGGGACCCGGTCAGGTACTTTCGCGTCTTGATAAAA 161003 ||||| || ||| || ||| |||| | | | || || ||| | |||| ||| Sbjct 189373 GGAAAGTCTACCTCTTCTTTACTAAGGGGCTCTACAATATATTTGCGCACCCTGATGAAA 189314 Query 161004 TAATCACAATCCCGCGTCATGTTGATATA 161032 | ||||||| || |||||||| ||||| Sbjct 189313 GAGGCACAATCACGGGTCATGTTTATATA 189285 >seq112772 Length=1341 Score = 102 bits (112), Expect = 9e-17 Identities = 139/194 (72%), Gaps = 0/194 (0%) Strand=Plus/Minus Query 176232 AGATATTTTACTAGGTCACGTGGCGAGTCATAATCATTAACATGTATAAATGCGTGTGGT 176291 ||||| ||| | | |||| || |||| |||||| | ||||| || |||| | | | Sbjct 1043 AGATAGTTTGCCAACTCACTGGGAGAGTTATAATCTTCCACATGAATGAATGAATCAGCT 984 Query 176292 GGAATGTAGTTTTCATAATTTTGTCTGGAGGGTCCTAAAACTATTGGTACGGTACGTGCT 176351 ||||| || || ||||| |||| || || ||||| | || | ||||| | | || Sbjct 983 GGAATATAATTCTCATAGTTTTCCCTAGATGGTCCAAGGACAACAGGTACTGAGCCAGCC 924 Query 176352 AATAATGAGCGGTAGATCTTTTCTGAGATGTAGTCAGTGTGAATTGAGTTTTCAAAAGCT 176411 || |||| ||||| |||||||| |||||| || ||||||||||||||||||| | Sbjct 923 AAAAATGCATTGTAGAGCTTTTCTGTGATGTAATCTTTGTGAATTGAGTTTTCAAACGAA 864 Query 176412 AAATAGAACTTACA 176425 | ||| || ||||| Sbjct 863 AGATAAAATTTACA 850 >seq34769 Length=1374272 Score = 95.1 bits (104), Expect = 1e-14 Identities = 180/265 (68%), Gaps = 0/265 (0%) Strand=Plus/Plus Query 160120 GGTGAGCGTTCTGTAGGATCCAGTGCACGTCTCCGGACCCGAACACGCAGACGGAACGTA 160179 ||||| ||||| || |||||||||| ||| || ||||| | | ||||||| || Sbjct 612783 GGTGATGGTTCTTCAGTATCCAGTGCAGGTCCCCAGACCCATAAATACAGACGGCCCGCT 612842 Query 160180 TGTGCACGCCGTTGCAAGGCGGGTACAGAGCTCCTTTCGCCACGTCACCTTCGTAGTACT 160239 ||| | || |||||| | ||| | || || | | | | ||| || |||| || || Sbjct 612843 GGTGGATTCCTGAGCAAGGTGTGTAGGGCGCCCCATCCTCAATGTCTCCCTCGTGGTCCT 612902 Query 160240 GCCACTTCACAAACCTGGCTATCGCCTGCATGTCGGAGGTGTCGTATTTGTACATCAGGG 160299 ||||||| | | ||| || || | |||||| ||| ||| |||||| || || Sbjct 612903 GCCACTTGATTAGCCTTGCAATAGATCTCATGTCTGAGAGGTCAAATTTGTGGTGCAAGG 612962 Query 160300 GAACGGCACCGGGAACGCCGGGCATACGCTGTAGGGTGGCCCACAGGTGTTCGTCGGGGC 160359 |||| | || || | | | |||||| ||||||||||| |||||||| || || | Sbjct 612963 GAACTGATCCAGGCATCCATGAGGCACGCTGGAGGGTGGCCCAAAGGTGTTCATCAGGAC 613022 Query 160360 TGTACGTGTCCTTAGACCATTCCAT 160384 | || ||||| || |||||| || Sbjct 613023 TATAGGTGTCTTTTACCCATTCGAT 613047 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 576357895155480