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_004105.1 Length=209771 Score E Sequences producing significant alignments: (Bits) Value seq44403 120 4e-22 seq14694 105 9e-18 seq116961 96.9 5e-15 >seq44403 Length=740699 Score = 120 bits (132), Expect = 4e-22 Identities = 108/136 (79%), Gaps = 0/136 (0%) Strand=Plus/Minus Query 71143 ACTTGAAATTCTCCAGACAATACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACT 71202 || ||||||||||| ||||| || || |||||||| || |||||||| || ||||| | Sbjct 631769 ACCTGAAATTCTCCTGACAAGACCCTGCGAGTGTAGATGTTACTGGTGTAAGGTTCAATG 631710 Query 71203 GACTCATTATTTCCCAAAATTTGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGA 71262 || |||||||| |||| ||| ||||||||||| ||||| ||||| || || | | || | Sbjct 631709 GATTCATTATTCCCCAGAATCTGAGCAGTTGAGGCAGTAGGCATTGGGGCAATAAGTAAA 631650 Query 71263 CTATTTCTAAGACCAT 71278 || ||||| | ||||| Sbjct 631649 CTGTTTCTTACACCAT 631634 Score = 105 bits (116), Expect = 9e-18 Identities = 126/171 (74%), Gaps = 0/171 (0%) Strand=Plus/Minus Query 70868 TCCATCCGTAAAAATGCATACTCGTTAGTTTGGAATAGCTAGGATCGGCTATGTGAATAT 70927 |||| ||||| || |||||||| || |||||| |||| |||| || || ||||| || | Sbjct 634851 TCCAGCCGTAGAAGTGCATACTAGTGAGTTTGCCATAGTTAGGCTCAGCAATGTGGATGT 634792 Query 70928 TCATCGACTGACTTTGATCGATGAAGGCTCCCCTGTCTGCAGCCATTTTTATGATCGTCT 70987 | | ||||| |||||||||||||| || || || || || ||||| || | | |||| Sbjct 634791 TTAAAGACTGGCTTTGATCGATGAAAGCACCTCTCTCGGCTGCCATCTTGAGAACAGTCT 634732 Query 70988 TTTGTGGAATTTCCCAAATAGTTTTATAAACTCGCTTAATATCTTCTGGAA 71038 | || | |||||||| | ||| ||||| | |||| | || || |||| Sbjct 634731 TCTGAGAGATTTCCCACACAGTCTTATAGAGCTGCTTTAGGTCATCAGGAA 634681 Score = 98.7 bits (108), Expect = 1e-15 Identities = 117/159 (74%), Gaps = 0/159 (0%) Strand=Plus/Minus Query 72397 CTAGACATTTGGTGACGACTAGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAAC 72456 || |||| ||| | || | || || ||||| || | |||||||| ||||| |||||| Sbjct 617626 CTGGACAGTTGTGGGCGGTTGGTCCCAGCATTGAAGAGAGTAGGAGAGGCGTGAGTAAAC 617567 Query 72457 CATTTTTCAGACAGTAGATTGTACGTCTCAATAGCTGATTCTATATCCCATTGATGTATT 72516 || || ||||| || || ||||| || ||||| || | || |||||| || || || Sbjct 617566 CACTTCTCAGAAAGCAGGTTGTATGTTTCAATCGCAGCATCAATATCCTCTTTGTGAATC 617507 Query 72517 CCTACCGCGACACGCATTAACATATGCTGAGGTCTTTCA 72555 || || | || | ||| ||||||||||| ||||||||| Sbjct 617506 CCCACAGATACCCTCATCAACATATGCTGTGGTCTTTCA 617468 Score = 89.7 bits (98), Expect = 7e-13 Identities = 100/134 (75%), Gaps = 0/134 (0%) Strand=Plus/Minus Query 72022 ACTCGTTTCATAAAGAGATCAGGAATCCAAAGAGCTATAAATAGATCTCTGGTTCTATGC 72081 ||||| ||||| |||||||| ||||||||||| || | || ||||| | || || ||| Sbjct 624562 ACTCGCTTCATGAAGAGATCTGGAATCCAAAGTGCAAAGAAGAGATCCCGGGCTCGCTGC 624503 Query 72082 TCCTCGTTTCCTGTATTCTTTTTAAGATCGAGGAACGCCATAATATCAGAATGCCACGGT 72141 || || || ||||| ||||| || | || |||||| | | || || | ||||| || Sbjct 624502 TCTTCCTTCCCTGTGTTCTTCTTCAAGTCAAGGAACTCAAAGATGTCTAAGTGCCAAGGC 624443 Query 72142 TCCAAGTATATGGC 72155 |||| ||| ||||| Sbjct 624442 TCCAGGTAAATGGC 624429 Score = 87.8 bits (96), Expect = 2e-12 Identities = 116/161 (72%), Gaps = 0/161 (0%) Strand=Plus/Minus Query 71410 GCTAGTTCACAACTCGCCTCTAATGCTCCATAATAAATGGTTTCGAAAATCTTCTTATTG 71469 ||||| ||||| || || || || |||||||||||||| ||||| || || | |||||| Sbjct 627679 GCTAGGTCACAGCTAGCTTCCAAAGCTCCATAATAAATAGTTTCAAAGATTTGCTTATTC 627620 Query 71470 AGATCTTGTGCTTCCGGGCTATCAAATGGATAATTTAAGAGAATAAACGCGTCTGCTAAT 71529 | || ||||| ||||| ||||| || || | | || || || || ||||||| Sbjct 627619 AATAACTGGGCTTCTGGGCTCTCAAAGGGGTATCTCATCAGGATGAAAGCATCTGCTAGA 627560 Query 71530 CCTTGAACGCCAATACCGATAGGTCTGTGTCTCTTATTAGA 71570 ||||| || ||||| || || || | || | ||||| || Sbjct 627559 CCTTGTACCCCAATTCCAATGGGCCGATGGCGTTTATTTGA 627519 >seq14694 Length=1798513 Score = 105 bits (116), Expect = 9e-18 Identities = 96/121 (79%), Gaps = 0/121 (0%) Strand=Plus/Plus Query 42087 CCTCATCTCTACTAATTAATTCGTTGGAAAACGTGAGTCCGGGCATTAGGCCACGCTTTT 42146 |||| ||||| ||||| | || ||||||||||| || || ||||| || || || || | Sbjct 774096 CCTCGTCTCTGCTAATAAGCTCATTGGAAAACGTAAGGCCAGGCATCAGTCCCCGTTTCT 774155 Query 42147 TAAGCCAAAATATAGACGCAAATGATCCAGAAAAGAAGATTCCTTCTACTGCCGCAAAGG 42206 | ||||| ||||| || ||||| || ||||| |||||||| ||||| || || ||||||| Sbjct 774156 TGAGCCAGAATATTGATGCAAAAGAGCCAGAGAAGAAGATCCCTTCCACGGCGGCAAAGG 774215 Query 42207 C 42207 | Sbjct 774216 C 774216 Score = 100 bits (110), Expect = 4e-16 Identities = 110/145 (76%), Gaps = 5/145 (3%) Strand=Plus/Plus Query 41713 GTTTCTTTAAAAGTCAACATCTAAAGAAAAATGATTGTCTTCTTGA----GACATAACTC 41768 |||| ||| || ||| |||| || | |||| ||| ||| |||| ||||| || | Sbjct 772095 GTTTACTTAGAAATCAGCATCCAAGGTAAAAGAATTCTCTG-TTGAACTCGACATCACCC 772153 Query 41769 CCATTTTTTGGTATTCACCCACACGTTTTTCGAAAAAATTAGTCTTTCCTTCCAATGATA 41828 |||| | |||||||| ||||| || || || || || || ||||||||||| | ||| | Sbjct 772154 CCATCCTCTGGTATTCTCCCACTCGCTTCTCAAAGAAGTTTGTCTTTCCTTCTAGTGAAA 772213 Query 41829 TATTTTCCATGAAATCAAACGGATT 41853 ||||||||||||| ||||| ||||| Sbjct 772214 TATTTTCCATGAAGTCAAATGGATT 772238 >seq116961 Length=993603 Score = 96.9 bits (106), Expect = 5e-15 Identities = 205/301 (68%), Gaps = 9/301 (3%) Strand=Plus/Minus Query 39854 CTTCCAGTTCTGGATAATATATACGTTGATAGATTAGCTGAGCTATTCTATCTCCCGTAT 39913 |||| | ||||||||| | || |||| | | || ||||| || || | ||| || | | Sbjct 255546 CTTCTAAGTCTGGATAAAAGATCCGTTCAGAAATGAGCTGTGCAATCCGATCACCTTTTT 255487 Query 39914 TTACATTGAAAGTACA-TTTTCCATTATTAATAAGAATGACTCCTATGTTTCCCCTATAA 39972 | || || ||| | | ||||||| ||||| || | || || | ||||| |||||| Sbjct 255486 TCAC-TTCAAACTTCTCTTTTCCAAAATTAAACAGCACAACACCAACATTTCCTCTATAA 255428 Query 39973 TCTTCGTCTATTACACCGCCTCCTATATCAAT---ACCTTTTAGGGACAGACCAGACCTA 40029 ||||| ||||| ||||| |||||| ||| || ||||| | || ||||| | Sbjct 255427 TCTTCATCTATGACACCAGCTCCTACATCTATGAAGGGTTTTACTGCCAAGCCAGAACCT 255368 Query 40030 GGAGCTATTCTACCATAGCAGAACTTAGGCATGGACATACTAATATCTGTCTTAATTAAC 40089 ||||||| ||| |||||||| ||| | | || ||| ||||| || | | Sbjct 255367 GGAGCTACTCTTCCATAGCATCCAGAAGGAACAGCTATCTGAATGTCTGTTTTCA--CAA 255310 Query 40090 TGTCTTTCTCC--CGGAGGGATAGTATAATCGTAAGCGCTATACAAATCATATCCAGCGG 40147 || |||||||| || ||||| |||||||| || || || |||| || || || || | Sbjct 255309 TGGCTTTCTCCATGGGTGGGATTGTATAATCATAGGCACTGTACAGGTCGTAGCCCGCAG 255250 Query 40148 C 40148 | Sbjct 255249 C 255249 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 670137751253480